http://wiki.christophchamp.com/index.php?action=history&feed=atom&title=List_of_ccp4_programs 2026-04-30T09:38:12Z Revision history for this page on the wiki MediaWiki 1.26.2 http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=4656&oldid=prev 2007-09-29T01:27:36Z

<p>‎<span dir="auto"><span class="autocomment">Model analysis</span></span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 01:27, 29 September 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l96" >Line 96:</td> <td colspan="2" class="diff-lineno">Line 96:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/act.html act] : analyse coordinates</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/act.html act] : analyse coordinates</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>;[<del class="diffchange diffchange-inline">http://www.ccp4.ac.uk/dist/html/areaimol.html </del>areaimol] : Analyse solvent accessible areas (supported)</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>;[<ins class="diffchange diffchange-inline">[</ins>areaimol<ins class="diffchange diffchange-inline">]</ins>] : Analyse solvent accessible areas (supported)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/baverage.html baverage] : averages B over main and side chain atoms</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/baverage.html baverage] : averages B over main and side chain atoms</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/cavenv.html cavenv] : Calculates cavities in macromolecular structures</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/cavenv.html cavenv] : Calculates cavities in macromolecular structures</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=4651&oldid=prev 2007-09-28T22:44:43Z

<p>‎<span dir="auto"><span class="autocomment">Protein sequence file manipulations</span></span></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 22:44, 28 September 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l219" >Line 219:</td> <td colspan="2" class="diff-lineno">Line 219:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Protein sequence file manipulations==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Protein sequence file manipulations==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw <del class="diffchange diffchange-inline">interface</del>.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/<del class="diffchange diffchange-inline">import/edit protein sequence</del>.html import/edit protein sequence] : Import and edit protein sequences</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/<ins class="diffchange diffchange-inline">get_prot</ins>.html import/edit protein sequence] : Import and edit protein sequences</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Scaling data==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Scaling data==</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=4650&oldid=prev 2007-09-28T22:37:07Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 22:37, 28 September 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l106" >Line 106:</td> <td colspan="2" class="diff-lineno">Line 106:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/procheck.html procheck] : programs to check the Stereochemical Quality of Protein Structures</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/procheck.html procheck] : programs to check the Stereochemical Quality of Protein Structures</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/rotamer.html rotamer] : List amino acids whose side chain torsion angles deviate from the Penultimate Rotamer Library</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/rotamer.html rotamer] : List amino acids whose side chain torsion angles deviate from the Penultimate Rotamer Library</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/<del class="diffchange diffchange-inline">rotamer table</del>.html rotamer table] : rotamer tables used in the `rotamer' program</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/<ins class="diffchange diffchange-inline">rotamer_table</ins>.html rotamer table] : rotamer tables used in the `rotamer' program</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sc.html sc] : analyse shape complementarity (supported)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sc.html sc] : analyse shape complementarity (supported)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sfcheck.html sfcheck] : program for assessing the agreement between the atomic model and X-ray data</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sfcheck.html sfcheck] : program for assessing the agreement between the atomic model and X-ray data</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=4649&oldid=prev 2007-09-28T21:50:23Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 21:50, 28 September 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"> see: [http://www.ccp4.ac.uk/dist/html/ CCP4 v6.0.2 Program Documentation]</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Coordinate file manipulations==</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Coordinate file manipulations==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l232" >Line 232:</td> <td colspan="2" class="diff-lineno">Line 234:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">==References==</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">*Collaborative Computational Project, Number 4. 1994. &quot;The CCP4 Suite: Programs for Protein Crystallography&quot;. ''Acta Cryst, D50:760-763''.</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>[[Category:ccp4| ]]</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>[[Category:ccp4| ]]</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=4648&oldid=prev 2007-09-28T21:49:14Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 21:49, 28 September 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l3" >Line 3:</td> <td colspan="2" class="diff-lineno">Line 3:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/bones2pdb.html bones2pdb] : Make a PDB pseudo-coordinate file from a bones file</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/bones2pdb.html bones2pdb] : Make a PDB pseudo-coordinate file from a bones file</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/chainsaw.html chainsaw] : Mutate a pdb file according to an input sequence alignment</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/chainsaw.html chainsaw] : Mutate a pdb file according to an input sequence alignment</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw <del class="diffchange diffchange-inline">interface</del>.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/coordconv.html coordconv] : Interconvert various coordinate formats</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/coordconv.html coordconv] : Interconvert various coordinate formats</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/coord_format.html coord_format] : fix PDB format and convert to/from other formats</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/coord_format.html coord_format] : fix PDB format and convert to/from other formats</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=3760&oldid=prev 2007-04-25T04:10:27Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 04:10, 25 April 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">The '''Collaborative Computational Project Number 4''' in protein [[:Category:Crystallography|crystallography]]&#160; or ('''CCP4''') was set up in 1979 in the United Kingdom to support collaboration between researchers software development and assemble a comprehensive collection of software for structural biology.</del></div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Coordinate file manipulations==</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>&#160;</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">==List of programs==</del></div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Coordinate file manipulations<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/bones2pdb.html bones2pdb] : Make a PDB pseudo-coordinate file from a bones file</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/bones2pdb.html bones2pdb] : Make a PDB pseudo-coordinate file from a bones file</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l24" >Line 24:</td> <td colspan="2" class="diff-lineno">Line 21:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/watpeak.html watpeak] : selects peaks from peakmax and puts them close to the respective protein atoms</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/watpeak.html watpeak] : selects peaks from peakmax and puts them close to the respective protein atoms</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Data harvesting and datasets<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Data harvesting and datasets==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; 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color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Data processing and reduction<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Data processing and reduction==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/combat.html combat] : produces an MTZ file in multirecord form suitable for input to SCALA.</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/combat.html combat] : produces an MTZ file in multirecord form suitable for input to SCALA.</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l51" >Line 51:</td> <td colspan="2" class="diff-lineno">Line 48:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/wilson.html wilson] : Wilson plot, absolute scale and temperature factor</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/wilson.html wilson] : Wilson plot, absolute scale and temperature factor</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; 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border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/arp_waters.html arp_waters] : Automated Refinement Procedure for refining protein structures</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/arp_waters.html arp_waters] : Automated Refinement Procedure for refining protein structures</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l58" >Line 58:</td> <td colspan="2" class="diff-lineno">Line 55:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/ffjoin.html ffjoin] : joining model fragments from FFFEAR</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/ffjoin.html ffjoin] : joining model fragments from FFFEAR</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Density modification : molecular averaging<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Density modification : molecular averaging==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/hltofom.html hltofom] : Convert to/from Hendrickson-Lattman coefficients</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/hltofom.html hltofom] : Convert to/from Hendrickson-Lattman coefficients</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l71" >Line 71:</td> <td colspan="2" class="diff-lineno">Line 68:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/solomon.html solomon] : density modification (phase improvement) by solvent flipping</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/solomon.html solomon] : density modification (phase improvement) by solvent flipping</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Experimental phasing<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Experimental phasing==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l77" >Line 77:</td> <td colspan="2" class="diff-lineno">Line 74:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/rantan.html rantan] : Direct Method module for the determination of heavy atom positions</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/rantan.html rantan] : Direct Method module for the determination of heavy atom positions</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Map calculation and manipulation<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Map calculation and manipulation==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/extends.html extends] : Extend Fourier maps and compute standard uncertainty of electron density</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/extends.html extends] : Extend Fourier maps and compute standard uncertainty of electron density</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l94" >Line 94:</td> <td colspan="2" class="diff-lineno">Line 91:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/xdlmapman.html xdlmapman] : manipulation, analysis and reformatting of electron density maps (X-windows tool)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/xdlmapman.html xdlmapman] : manipulation, analysis and reformatting of electron density maps (X-windows tool)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Model analysis<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Model analysis==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/act.html act] : analyse coordinates</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/act.html act] : analyse coordinates</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l114" >Line 114:</td> <td colspan="2" class="diff-lineno">Line 111:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/volume.html volume] : polyhedral volume around selected atoms</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/volume.html volume] : polyhedral volume around selected atoms</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Model refinement<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Model refinement==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/anisoanl.html anisoanl] : analyses of anisotropic displacement parameters</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/anisoanl.html anisoanl] : analyses of anisotropic displacement parameters</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l131" >Line 131:</td> <td colspan="2" class="diff-lineno">Line 128:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/watncs.html watncs] : Pick waters which follow NCS and sort out to NCS asymmetric unit</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/watncs.html watncs] : Pick waters which follow NCS and sort out to NCS asymmetric unit</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Molecular replacement<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Molecular replacement==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/almn.html almn] : calculates rotation function overlap values using FFT techniques (alternative to AMORE)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/almn.html almn] : calculates rotation function overlap values using FFT techniques (alternative to AMORE)</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l148" >Line 148:</td> <td colspan="2" class="diff-lineno">Line 145:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/tffc.html tffc] : Translation Function Fourier Coefficients</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/tffc.html tffc] : Translation Function Fourier Coefficients</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==MTZ manipulations / conversions<del class="diffchange diffchange-inline">==</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==MTZ manipulations / conversions==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/cad.html cad] : Collect and sort crystallographic reflection data from several files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/cad.html cad] : Collect and sort crystallographic reflection data from several files</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l166" >Line 166:</td> <td colspan="2" class="diff-lineno">Line 163:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/xdldataman.html xdldataman] : manipulation, analysis and reformatting of reflection files (X-windows tool)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/xdldataman.html xdldataman] : manipulation, analysis and reformatting of reflection files (X-windows tool)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Multiple isomorphous replacement<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Multiple isomorphous replacement==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l180" >Line 180:</td> <td colspan="2" class="diff-lineno">Line 177:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/vectors.html vectors] : generates Patterson vectors from atomic coordinates</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/vectors.html vectors] : generates Patterson vectors from atomic coordinates</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Multiwavelength anomalous dispersion (MAD)<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Multiwavelength anomalous dispersion (MAD)==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l190" >Line 190:</td> <td colspan="2" class="diff-lineno">Line 187:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sapi.html sapi] : heavy atom site location</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/sapi.html sapi] : heavy atom site location</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Native protein data at atomic resolution<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Native protein data at atomic resolution==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Others / jiffies<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Others / jiffies==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/phistats.html phistats] : Analysis of agreement between phase sets, and checking it against weighting factors</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/phistats.html phistats] : Analysis of agreement between phase sets, and checking it against weighting factors</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l202" >Line 202:</td> <td colspan="2" class="diff-lineno">Line 199:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/tracer.html tracer] : Lattice TRAnsformation and CEll Reduction</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/tracer.html tracer] : Lattice TRAnsformation and CEll Reduction</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Plotting / graphics<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Plotting / graphics==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/astexviewer.html astexviewer] : Java program for display molecular structures and electron density maps</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; 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color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Protein sequence file manipulations<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Protein sequence file manipulations==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw interface.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/clustalw interface.html clustalw interface] : Graphical Interface to the ClustalW Program</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/import/edit protein sequence.html import/edit protein sequence] : Import and edit protein sequences</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/import/edit protein sequence.html import/edit protein sequence] : Import and edit protein sequences</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Scaling data<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Scaling data==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/fhscal.html fhscal] : Scaling of isomorphous derivative data using Kraut's method (see also SCALEIT)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/fhscal.html fhscal] : Scaling of isomorphous derivative data using Kraut's method (see also SCALEIT)</div></td></tr> <tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l231" >Line 231:</td> <td colspan="2" class="diff-lineno">Line 228:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/scaleit.html scaleit] : derivative to native scaling (see also FHSCAL)</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/scaleit.html scaleit] : derivative to native scaling (see also FHSCAL)</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del class="diffchange diffchange-inline">=</del>==Validation and deposition<del class="diffchange diffchange-inline">=</del>==</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>==Validation and deposition==</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=3759&oldid=prev 2007-04-25T04:09:13Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;' lang='en'> <td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td> <td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 04:09, 25 April 2007</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l235" >Line 235:</td> <td colspan="2" class="diff-lineno">Line 235:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files</div></td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;">==See also==</del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;">*[[CCP4 (file format)]]</del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;"></del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;">==External links==</del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div><del style="font-weight: bold; text-decoration: none;">*[http://www.ccp4.ac.uk/main.html CCP4 official site]</del></div></td><td colspan="2">&#160;</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>[[Category:ccp4| ]]</div></td><td class='diff-marker'>&#160;</td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>[[Category:ccp4| ]]</div></td></tr> </table>

Christoph http://wiki.christophchamp.com/index.php?title=List_of_ccp4_programs&diff=3758&oldid=prev 2007-04-25T04:07:31Z

<p></p> <p><b>New page</b></p><div>The '''Collaborative Computational Project Number 4''' in protein [[:Category:Crystallography|crystallography]] or ('''CCP4''') was set up in 1979 in the United Kingdom to support collaboration between researchers software development and assemble a comprehensive collection of software for structural biology.<br /> <br /> ==List of programs==<br /> ===Coordinate file manipulations===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/bones2pdb.html bones2pdb] : Make a PDB pseudo-coordinate file from a bones file<br /> ;[http://www.ccp4.ac.uk/dist/html/chainsaw.html chainsaw] : Mutate a pdb file according to an input sequence alignment<br /> ;[http://www.ccp4.ac.uk/dist/html/clustalw interface.html clustalw interface] : Graphical Interface to the ClustalW Program<br /> ;[http://www.ccp4.ac.uk/dist/html/coordconv.html coordconv] : Interconvert various coordinate formats<br /> ;[http://www.ccp4.ac.uk/dist/html/coord_format.html coord_format] : fix PDB format and convert to/from other formats<br /> ;[http://www.ccp4.ac.uk/dist/html/gensym.html gensym] : generate sites by symmetry<br /> ;[http://www.ccp4.ac.uk/dist/html/geomcalc.html geomcalc] : molecular geometry calculations<br /> ;[http://www.ccp4.ac.uk/dist/html/hgen.html hgen] : generate hydrogen atom positions for proteins<br /> ;[http://www.ccp4.ac.uk/dist/html/lsqkab.html lsqkab] : apply various transformations to coordinate files<br /> ;[http://www.ccp4.ac.uk/dist/html/makedict.html makedict] : converts PDB file to TNT or PROTIN dictionaries and PROTIN to PDB<br /> ;[http://www.ccp4.ac.uk/dist/html/pdbcur.html pdbcur] : various useful manipulations on coordinate files<br /> ;[http://www.ccp4.ac.uk/dist/html/pdb_merge.html pdb_merge] : merge two coordinate files into one<br /> ;[http://www.ccp4.ac.uk/dist/html/pdbset.html pdbset] : various useful manipulations on coordinate files<br /> ;[http://www.ccp4.ac.uk/dist/html/reforigin.html reforigin] : apply best origin shift to PDB atom co-ords according to reference file (unsupported)<br /> ;[http://www.ccp4.ac.uk/dist/html/rwcontents.html rwcontents] : Count atoms by type<br /> ;[http://www.ccp4.ac.uk/dist/html/sortwater.html sortwater] : sort waters by the protein chain to which they &quot;belong&quot;<br /> ;[http://www.ccp4.ac.uk/dist/html/superpose.html superpose] : structural alignment based on secondary structure matching<br /> ;[http://www.ccp4.ac.uk/dist/html/watertidy.html watertidy] : rationalise waters at the end of refinement<br /> ;[http://www.ccp4.ac.uk/dist/html/watpeak.html watpeak] : selects peaks from peakmax and puts them close to the respective protein atoms<br /> <br /> ===Data harvesting and datasets===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/cif2xml.html cif2xml] : Conversion of mmCIF files to XML<br /> ;[http://www.ccp4.ac.uk/dist/html/cross_validate.html cross_validate] : Validation of harvest files for deposition<br /> ;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files<br /> ;[http://www.ccp4.ac.uk/dist/html/harvesting.html harvesting] : harvesting data automatically and using datasets<br /> ;[http://www.ccp4.ac.uk/dist/html/harvlib.html harvlib] : Subroutine library for writing CIF harvest files<br /> ;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files<br /> <br /> ===Data processing and reduction===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/combat.html combat] : produces an MTZ file in multirecord form suitable for input to SCALA.<br /> ;[http://www.ccp4.ac.uk/dist/html/crossec.html crossec] : interpolate X-ray cross sections and compute anomalous scattering factors<br /> ;[http://www.ccp4.ac.uk/dist/html/detwin.html detwin] : detwins merohedrally twinned data<br /> ;[http://www.ccp4.ac.uk/dist/html/dtrek2mtz.html dtrek2mtz] : converts d*trek scalemerge output into MTZ format<br /> ;[http://www.ccp4.ac.uk/dist/html/dtrek2scala.html dtrek2scala] : initial processing of intensity files from D*TREK<br /> ;[http://www.ccp4.ac.uk/dist/html/rebatch.html rebatch] : alter batch numbers in an unmerged MTZ file<br /> ;[http://www.ccp4.ac.uk/dist/html/reindex.html reindex] : produces an MTZ file with h k l reindexed and/or the symmetry changed<br /> ;[http://www.ccp4.ac.uk/dist/html/reindexing.html reindexing] : information about changing indexing regime (see reindex)<br /> ;[http://www.ccp4.ac.uk/dist/html/rotaprep.html rotaprep] : produces an MTZ file in multirecord form suitable for input to SCALA.<br /> ;[http://www.ccp4.ac.uk/dist/html/scala.html scala] : scale together multiple observations of reflections<br /> ;[http://www.ccp4.ac.uk/dist/html/scalepack2mtz.html scalepack2mtz] : converts merged scalepack output into MTZ format<br /> ;[http://www.ccp4.ac.uk/dist/html/truncate.html truncate] : obtain structure factor amplitudes using Truncate procedure<br /> ;[http://www.ccp4.ac.uk/dist/html/twinning.html twinning] : dealing with data from twinned crystals<br /> ;[http://www.ccp4.ac.uk/dist/html/unique.html unique] : Generate a unique list of reflections (including uniqueify)<br /> ;[http://www.ccp4.ac.uk/dist/html/wilson.html wilson] : Wilson plot, absolute scale and temperature factor<br /> <br /> ===Density fitting and model building===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/arp_waters.html arp_waters] : Automated Refinement Procedure for refining protein structures<br /> ;[http://www.ccp4.ac.uk/dist/html/fffear fragment library.html fffear fragment library] : map interpretation package<br /> ;[http://www.ccp4.ac.uk/dist/html/fffear.html fffear] : map interpretation package<br /> ;[http://www.ccp4.ac.uk/dist/html/ffjoin.html ffjoin] : joining model fragments from FFFEAR<br /> <br /> ===Density modification : molecular averaging===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/hltofom.html hltofom] : Convert to/from Hendrickson-Lattman coefficients<br /> ;[http://www.ccp4.ac.uk/dist/html/pirate.html pirate] : Statistical Phase Improvement<br /> ;[http://www.ccp4.ac.uk/dist/html/dm.html dm] : density modification package<br /> ;[http://www.ccp4.ac.uk/dist/html/dmmulti.html dmmulti] : multi-xtal density modification package<br /> ;[http://www.ccp4.ac.uk/dist/html/dm_ncs_averaging.html dm_ncs_averaging] : dm for ncs averaging (see DM program)<br /> ;[http://www.ccp4.ac.uk/dist/html/dm_skeletonisation.html dm_skeletonisation] : iterative skeletonisation using dm (see DM program)<br /> ;[http://www.ccp4.ac.uk/dist/html/matthews_coef.html matthews_coef] : Misha Isupov's Jiffy to calculate Matthews coefficient<br /> ;[http://www.ccp4.ac.uk/dist/html/ncsmask.html ncsmask] : averaging mask manipulation program<br /> ;[http://www.ccp4.ac.uk/dist/html/professs.html professs] : determination of NCS operators from heavy atoms<br /> ;[http://www.ccp4.ac.uk/dist/html/solomon.html solomon] : density modification (phase improvement) by solvent flipping<br /> <br /> ===Experimental phasing===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure<br /> ;[http://www.ccp4.ac.uk/dist/html/crank.html crank] : Automated structure solution for experimental phasing<br /> ;[http://www.ccp4.ac.uk/dist/html/rantan.html rantan] : Direct Method module for the determination of heavy atom positions<br /> <br /> ===Map calculation and manipulation===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/extends.html extends] : Extend Fourier maps and compute standard uncertainty of electron density<br /> ;[http://www.ccp4.ac.uk/dist/html/fft.html fft] : fast Fourier transform<br /> ;[http://www.ccp4.ac.uk/dist/html/mama2ccp4.html mama2ccp4] : Convert between `mama' and Cambridge/CCP4 map formats<br /> ;[http://www.ccp4.ac.uk/dist/html/map2fs.html map2fs] : convert CCP4 map to XtalView fsfour format<br /> ;[http://www.ccp4.ac.uk/dist/html/mapdump.html mapdump] : print a dump of sections of a map file<br /> ;[http://www.ccp4.ac.uk/dist/html/mapmask.html mapmask] : map/mask extend program<br /> ;[http://www.ccp4.ac.uk/dist/html/maprot.html maprot] : map skewing, interpolating, rotating, averaging and correlation masking program<br /> ;[http://www.ccp4.ac.uk/dist/html/mapsig.html mapsig] : print statistics on signal/noise for translation function map<br /> ;[http://www.ccp4.ac.uk/dist/html/maptona4.html maptona4] : Convert binary map file to and from na4 ascii format<br /> ;[http://www.ccp4.ac.uk/dist/html/omit.html omit] : program to calculate omit-maps according to Bhat procedure<br /> ;[http://www.ccp4.ac.uk/dist/html/overlapmap.html overlapmap] : calculates the average of two maps<br /> ;[http://www.ccp4.ac.uk/dist/html/peakmax.html peakmax] : search for peaks in the electron density map<br /> ;[http://www.ccp4.ac.uk/dist/html/sigmaa.html sigmaa] : Improved Fourier coefficients using calculated phases<br /> ;[http://www.ccp4.ac.uk/dist/html/xdlmapman.html xdlmapman] : manipulation, analysis and reformatting of electron density maps (X-windows tool)<br /> <br /> ===Model analysis===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/act.html act] : analyse coordinates<br /> ;[http://www.ccp4.ac.uk/dist/html/areaimol.html areaimol] : Analyse solvent accessible areas (supported)<br /> ;[http://www.ccp4.ac.uk/dist/html/baverage.html baverage] : averages B over main and side chain atoms<br /> ;[http://www.ccp4.ac.uk/dist/html/cavenv.html cavenv] : Calculates cavities in macromolecular structures<br /> ;[http://www.ccp4.ac.uk/dist/html/contact.html contact] : computes various types of contacts in protein structures<br /> ;[http://www.ccp4.ac.uk/dist/html/distang.html distang] : Distances and angles calculation<br /> ;[http://www.ccp4.ac.uk/dist/html/dyndom.html dyndom] : determine dynamic domains when two conformations are available<br /> ;[http://www.ccp4.ac.uk/dist/html/ncont.html ncont] : computes various types of contacts in protein structures<br /> ;[http://www.ccp4.ac.uk/dist/html/polypose.html polypose] : program for superimposing many multi-domain structures<br /> ;[http://www.ccp4.ac.uk/dist/html/procheck.html procheck] : programs to check the Stereochemical Quality of Protein Structures<br /> ;[http://www.ccp4.ac.uk/dist/html/rotamer.html rotamer] : List amino acids whose side chain torsion angles deviate from the Penultimate Rotamer Library<br /> ;[http://www.ccp4.ac.uk/dist/html/rotamer table.html rotamer table] : rotamer tables used in the `rotamer' program<br /> ;[http://www.ccp4.ac.uk/dist/html/sc.html sc] : analyse shape complementarity (supported)<br /> ;[http://www.ccp4.ac.uk/dist/html/sfcheck.html sfcheck] : program for assessing the agreement between the atomic model and X-ray data<br /> ;[http://www.ccp4.ac.uk/dist/html/surface.html surface] : surface accessibility program and for preparing input file to program volume<br /> ;[http://www.ccp4.ac.uk/dist/html/topp.html topp] : a topological comparison program<br /> ;[http://www.ccp4.ac.uk/dist/html/volume.html volume] : polyhedral volume around selected atoms<br /> <br /> ===Model refinement===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/anisoanl.html anisoanl] : analyses of anisotropic displacement parameters<br /> ;[http://www.ccp4.ac.uk/dist/html/arp_waters.html arp_waters] : Automated Refinement Procedure for refining protein structures<br /> ;[http://www.ccp4.ac.uk/dist/html/intro_mon_lib.html intro_mon_lib] : description of monomer library used in CCP4<br /> ;[http://www.ccp4.ac.uk/dist/html/libcheck.html libcheck] : monomer library management program<br /> ;[http://www.ccp4.ac.uk/dist/html/lib_list.html lib_list] : contents of multi-purpose monomer dictionary used by REFMAC<br /> ;[http://www.ccp4.ac.uk/dist/html/mon_lib.html mon_lib] : description of multi-purpose monomer dictionary used by REFMAC<br /> ;[http://www.ccp4.ac.uk/dist/html/rdent.html rdent] : Create dictionary entries for Restrain from PDB file<br /> ;[http://www.ccp4.ac.uk/dist/html/refmac5.html refmac5] : macromolecular refinement program<br /> ;[http://www.ccp4.ac.uk/dist/html/restrain.html restrain] : macromolecular refinement program<br /> ;[http://www.ccp4.ac.uk/dist/html/sfall.html sfall] : Structure factor calculation and X-ray refinement using forward and reverse FFT<br /> ;[http://www.ccp4.ac.uk/dist/html/sketcher.html sketcher] : monomer library sketcher<br /> ;[http://www.ccp4.ac.uk/dist/html/tlsanl.html tlsanl] : analysis of TLS tensors and derived anisotropic U factors<br /> ;[http://www.ccp4.ac.uk/dist/html/tlsextract.html tlsextract] : extract TLS group description from a PDB file<br /> ;[http://www.ccp4.ac.uk/dist/html/watncs.html watncs] : Pick waters which follow NCS and sort out to NCS asymmetric unit<br /> <br /> ===Molecular replacement===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/almn.html almn] : calculates rotation function overlap values using FFT techniques (alternative to AMORE)<br /> ;[http://www.ccp4.ac.uk/dist/html/amore.html amore] : Jorge Navaza's state-of-the-art molecular replacement package<br /> ;[http://www.ccp4.ac.uk/dist/html/beast.html beast] : Likelihood-based molecular replacement<br /> ;[http://www.ccp4.ac.uk/dist/html/bulk.html bulk] : bulk solvent correction for translation search and rigid body refinement steps of AMoRe<br /> ;[http://www.ccp4.ac.uk/dist/html/ecalc.html ecalc] : calculate normalised structure amplitudes<br /> ;[http://www.ccp4.ac.uk/dist/html/fsearch.html fsearch] : 6-d molecular replacement (envelope) search<br /> ;[http://www.ccp4.ac.uk/dist/html/getax.html getax] : real space correlation search<br /> ;[http://www.ccp4.ac.uk/dist/html/molrep.html molrep] : automated program for molecular replacement<br /> ;[http://www.ccp4.ac.uk/dist/html/phaser.html phaser] : Maximum Likelihood Phasing<br /> ;[http://www.ccp4.ac.uk/dist/html/polarrfn.html polarrfn] : fast rotation function that works in polar angles<br /> ;[http://www.ccp4.ac.uk/dist/html/rfcorr.html rfcorr] : Analysis of correlations between cross- and self-Rotation functions<br /> ;[http://www.ccp4.ac.uk/dist/html/rotmat.html rotmat] : interconverts CCP4/MERLOT/X-PLOR rotation angles<br /> ;[http://www.ccp4.ac.uk/dist/html/rsearch.html rsearch] : R-factor and correlation coefficient between Fcalc and Fobs<br /> ;[http://www.ccp4.ac.uk/dist/html/tffc.html tffc] : Translation Function Fourier Coefficients<br /> <br /> ===MTZ manipulations / conversions====<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/cad.html cad] : Collect and sort crystallographic reflection data from several files<br /> ;[http://www.ccp4.ac.uk/dist/html/cif2mtz.html cif2mtz] : Convert an mmCIF reflection file to MTZ format<br /> ;[http://www.ccp4.ac.uk/dist/html/ecalc.html ecalc] : calculate normalised structure amplitudes<br /> ;[http://www.ccp4.ac.uk/dist/html/f2mtz.html f2mtz] : Convert a formatted reflection file to MTZ format<br /> ;[http://www.ccp4.ac.uk/dist/html/freerflag.html freerflag] : tags each reflection in an MTZ file with a flag for cross-validation<br /> ;[http://www.ccp4.ac.uk/dist/html/freerunique.html freerunique] : convert FreeRflags between CCP4 and other formats (see freerflag, uniqueify, mtz2various, f2mtz)<br /> ;[http://www.ccp4.ac.uk/dist/html/mtz2various.html mtz2various] : produces reflexion file for MULTAN, SHELX, TNT, X-PLOR/CNS, pseudo-SCALEPACK, XtalView, mmCIF or other ascii format<br /> ;[http://www.ccp4.ac.uk/dist/html/mtzdump.html mtzdump] : dump data from an MTZ reflection data file<br /> ;[http://www.ccp4.ac.uk/dist/html/mtzMADmod.html mtzMADmod] : Generate F+/F- or F/D from other for anomalous data<br /> ;[http://www.ccp4.ac.uk/dist/html/mtzmnf.html mtzmnf] : Identify missing data entries in an MTZ file and replace with a Missing Number Flag (MNF)<br /> ;[http://www.ccp4.ac.uk/dist/html/mtztona4.html mtztona4] : interconvert MTZ reflection file and ASCII format<br /> ;[http://www.ccp4.ac.uk/dist/html/mtzutils.html mtzutils] : Reflection data files utility program<br /> ;[http://www.ccp4.ac.uk/dist/html/sftools.html sftools] : reflection data file utility program<br /> ;[http://www.ccp4.ac.uk/dist/html/sortmtz.html sortmtz] : Sort a MTZ reflection data file<br /> ;[http://www.ccp4.ac.uk/dist/html/xdldataman.html xdldataman] : manipulation, analysis and reformatting of reflection files (X-windows tool)<br /> <br /> ===Multiple isomorphous replacement===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure<br /> ;[http://www.ccp4.ac.uk/dist/html/bp3.html bp3] : multivariate likelihood substructure refinement and phasing of S/MIR(AS) and/or S/MAD<br /> ;[http://www.ccp4.ac.uk/dist/html/findncs.html findncs] : detect NCS operations automatically from heavy atom sites<br /> ;[http://www.ccp4.ac.uk/dist/html/mlphare.html mlphare] : maximum likelihood heavy atom refinement and phase calculation<br /> ;[http://www.ccp4.ac.uk/dist/html/oasis.html oasis] : A program for breaking phase ambiguity in OAS or SIR<br /> ;[http://www.ccp4.ac.uk/dist/html/peakmax.html peakmax] : search for peaks in the electron density map<br /> ;[http://www.ccp4.ac.uk/dist/html/rsps.html rsps] : heavy atom positions from derivative difference Patterson maps<br /> ;[http://www.ccp4.ac.uk/dist/html/sapi.html sapi] : heavy atom site location<br /> ;[http://www.ccp4.ac.uk/dist/html/vecref.html vecref] : Vector-space refinement of heavy atom sites in isomorphous derivatives<br /> ;[http://www.ccp4.ac.uk/dist/html/vecsum.html vecsum] : program to deconvolute a Patterson function and solve the structure (unsupported)<br /> ;[http://www.ccp4.ac.uk/dist/html/vectors.html vectors] : generates Patterson vectors from atomic coordinates<br /> <br /> ===Multiwavelength anomalous dispersion (MAD)===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/abs.html abs] : determine the absolute configuration (hand) of the heavy atom substructure<br /> ;[http://www.ccp4.ac.uk/dist/html/bp3.html bp3] : multivariate likelihood substructure refinement and phasing of S/MIR(AS) and/or S/MAD<br /> ;[http://www.ccp4.ac.uk/dist/html/crossec.html crossec] : interpolate X-ray cross sections and compute anomalous scattering factors<br /> ;[http://www.ccp4.ac.uk/dist/html/mlphare.html mlphare] : maximum likelihood heavy atom refinement and phase calculation<br /> ;[http://www.ccp4.ac.uk/dist/html/oasis.html oasis] : A program for breaking phase ambiguity in OAS or SIR<br /> ;[http://www.ccp4.ac.uk/dist/html/revise.html revise] : estimates optimised value of the normalised anomalous scattering using MAD data<br /> ;[http://www.ccp4.ac.uk/dist/html/sapi.html sapi] : heavy atom site location<br /> <br /> ===Native protein data at atomic resolution===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/acorn.html acorn] : Molecular Replacement, Sayre Equation and Dynamic Density Modification for the determination of a protein structure<br /> <br /> ===Others / jiffies===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/phistats.html phistats] : Analysis of agreement between phase sets, and checking it against weighting factors<br /> ;[http://www.ccp4.ac.uk/dist/html/stereo.html stereo] : Extract coordinates from stereo diagrams<br /> ;[http://www.ccp4.ac.uk/dist/html/stgrid.html stgrid] : Generate plot to measure angular coordinates on a stereographic projection from polarrfn<br /> ;[http://www.ccp4.ac.uk/dist/html/stnet.html stnet] : Generate plot to measure angles between points on a stereographic projection from polarrfn<br /> ;[http://www.ccp4.ac.uk/dist/html/tracer.html tracer] : Lattice TRAnsformation and CEll Reduction<br /> <br /> ===Plotting / graphics===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/astexviewer.html astexviewer] : Java program for display molecular structures and electron density maps<br /> ;[http://www.ccp4.ac.uk/dist/html/ccp4mapwish.html ccp4mapwish] : custom wish interpreter required for MapSlicer<br /> ;[http://www.ccp4.ac.uk/dist/html/hklplot.html hklplot] : plots a precession photo from an HKL data file<br /> ;[http://www.ccp4.ac.uk/dist/html/hklview.html hklview] : displays zones of reciprocal space as pseudo-precession images (X-windows program)<br /> ;[http://www.ccp4.ac.uk/dist/html/ipdisp.html ipdisp] : displays images from a variety of (crystallographic) sources (X-Windows tool)<br /> ;[http://www.ccp4.ac.uk/dist/html/loggraph.html loggraph] : viewer for CCP4 formatted `log' files<br /> ;[http://www.ccp4.ac.uk/dist/html/mapslicer.html mapslicer] : interactive section viewer for CCP4 map files<br /> ;[http://www.ccp4.ac.uk/dist/html/npo.html npo] : Molecule and map plotting<br /> ;[http://www.ccp4.ac.uk/dist/html/pltdev.html pltdev] : convert Plot84 meta-files to PostScript, Tektronix or HPGL<br /> ;[http://www.ccp4.ac.uk/dist/html/rasmol.html rasmol] : Molecular Visualisation Program (X-windows tool)<br /> ;[http://www.ccp4.ac.uk/dist/html/topdraw.html topdraw] : Sketchpad for protein topology diagrams (supported)<br /> ;[http://www.ccp4.ac.uk/dist/html/xloggraph.html xloggraph] : a viewer of specially formatted `log' files (X-windows tool)<br /> ;[http://www.ccp4.ac.uk/dist/html/xplot84driver.html xplot84driver] : a viewer for Plot84 meta files (X-windows tool)<br /> <br /> ===Protein sequence file manipulations===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/clustalw interface.html clustalw interface] : Graphical Interface to the ClustalW Program<br /> ;[http://www.ccp4.ac.uk/dist/html/import/edit protein sequence.html import/edit protein sequence] : Import and edit protein sequences<br /> <br /> ===Scaling data===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/fhscal.html fhscal] : Scaling of isomorphous derivative data using Kraut's method (see also SCALEIT)<br /> ;[http://www.ccp4.ac.uk/dist/html/icoefl.html icoefl] : vectorially combined scaling of Fobs (Iobs) with partial Fc's<br /> ;[http://www.ccp4.ac.uk/dist/html/rstats.html rstats] : scale together two sets of F's<br /> ;[http://www.ccp4.ac.uk/dist/html/scalechoose.html scalechoose] : information about choice of scaling program (see reindex)<br /> ;[http://www.ccp4.ac.uk/dist/html/scaleit.html scaleit] : derivative to native scaling (see also FHSCAL)<br /> <br /> ===Validation and deposition===<br /> <br /> ;[http://www.ccp4.ac.uk/dist/html/dhm_tool.html data harvesting manager] : Tool for managing Data Harvesting Files<br /> ;[http://www.ccp4.ac.uk/dist/html/pdb_extract.html pdb_extract] : RCSB/PDB Programs for extracting harvest information from program log files<br /> <br /> ==See also==<br /> *[[CCP4 (file format)]]<br /> <br /> ==External links==<br /> *[http://www.ccp4.ac.uk/main.html CCP4 official site]<br /> <br /> [[Category:ccp4| ]]</div>

Christoph