https://wiki.biouml.org/index.php?action=history&feed=atom&title=Select_keynodes_with_top_targets_%28analysis%29 2026-04-13T06:32:13Z Revision history for this page on the wiki MediaWiki 1.20.3 https://wiki.biouml.org/index.php?title=Select_keynodes_with_top_targets_(analysis)&diff=8882&oldid=prev 2020-12-09T11:15:03Z

<p>Automatic synchronization with BioUML</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;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 11:15, 9 December 2020</td> </tr><tr><td colspan="2" class="diff-lineno">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>;Analysis title</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>;Analysis title</div></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>:[[File:<del class="diffchange diffchange-inline">Default</del>-<del class="diffchange diffchange-inline">analysis</del>-icon.png]] Select keynodes with top targets</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>:[[File:<ins class="diffchange diffchange-inline">Genome</ins>-<ins class="diffchange diffchange-inline">enhancer-Select-keynodes-with-top-targets</ins>-icon.png]] Select keynodes with top targets</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>;Provider</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>;Provider</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>:[[Biosoft]]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>:[[Biosoft]]</div></td></tr> <tr><td colspan="2" class="diff-lineno">Line 9:</td> <td colspan="2" class="diff-lineno">Line 9:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Description ====</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Description ====</div></td></tr> <tr><td class='diff-marker'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">Selects </del>top keynodes (by score and <del class="diffchange diffchange-inline">linked </del>to top targets)</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">This method selects </ins>top keynodes (by score and <ins class="diffchange diffchange-inline">linkage </ins>to top targets)<ins class="diffchange diffchange-inline">.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>&#160;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">This method uses the result of keynode analysis and Targets tables of &quot;[[PSD pharmaceutical compounds analysis|PSD pharmaceutical compounds analysis]]&quot; and &quot;[[Pharmaceutical Compounds analysis|Pharmaceutical Compounds analysis]]&quot;.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>&#160;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The method sorts the input table by ''Rank column'' and takes the ''Number of top elements'' molecules from the sorted table. It adds more molecules from the top so that the union of ''Column with gene IDs'' values will cover at least the ''Number of top targets'' from each target table.</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>&#160;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The maximum number of molecules that can be obtained is:</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>&#160;</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">''Number of top elements'' + ''Number of top targets'' * number_of_targets_tables</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters: ====</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>==== Parameters: ====</div></td></tr> <tr><td colspan="2" class="diff-lineno">Line 15:</td> <td colspan="2" class="diff-lineno">Line 23:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Path to keynodes result''' – Path to keynodes result</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Path to keynodes result''' – Path to keynodes result</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Column with gene IDs''' – Column with gene IDs</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Column with gene IDs''' – Column with gene IDs</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* '''Rank column''' (expert) – Input table will be sorted ascending by the column selected</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Number of top elements''' – Number of top elements</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Number of top elements''' – Number of top elements</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Paths to top targets''' – Paths to top targets</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Paths to top targets''' – Paths to top targets</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* '''Targets sort column''' (expert) – Sort targets if the column exist</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">* '''Sort targets ascending''' (expert) – Sort targets ascending</ins></div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Number of top targets''' – Maximal number of selected targets from each table</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Number of top targets''' – Maximal number of selected targets from each table</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Path to result''' – Path to result</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>* '''Path to result''' – Path to result</div></td></tr> </table>

WikiBot https://wiki.biouml.org/index.php?title=Select_keynodes_with_top_targets_(analysis)&diff=7785&oldid=prev 2019-03-12T09:33:31Z

<p>Protected &quot;<a href="/index.php/Select_keynodes_with_top_targets_(analysis)" title="Select keynodes with top targets (analysis)">Select keynodes with top targets (analysis)</a>&quot;: Autogenerated page (‎[edit=sysop] (indefinite))</p> <table class='diff diff-contentalign-left'> <tr style='vertical-align: top;'> <td colspan='1' style="background-color: white; color:black;">← Older revision</td> <td colspan='1' style="background-color: white; color:black;">Revision as of 09:33, 12 March 2019</td> </tr></table>

WikiBot https://wiki.biouml.org/index.php?title=Select_keynodes_with_top_targets_(analysis)&diff=7781&oldid=prev 2019-03-12T09:33:30Z

<p>Automatic synchronization with BioUML</p> <p><b>New page</b></p><div>;Analysis title<br /> :[[File:Default-analysis-icon.png]] Select keynodes with top targets<br /> ;Provider<br /> :[[Biosoft]]<br /> ;Class<br /> :{{Class|biouml.plugins.genomeenhancer.analysis.GETopKeynodesSelector}}<br /> ;Plugin<br /> :[[Biouml.plugins.genomeenhancer (plugin)|biouml.plugins.genomeenhancer (Genome Enhancer)]]<br /> <br /> ==== Description ====<br /> Selects top keynodes (by score and linked to top targets)<br /> <br /> ==== Parameters: ====<br /> <br /> * '''Path to keynodes result''' – Path to keynodes result<br /> * '''Column with gene IDs''' – Column with gene IDs<br /> * '''Number of top elements''' – Number of top elements<br /> * '''Paths to top targets''' – Paths to top targets<br /> * '''Number of top targets''' – Maximal number of selected targets from each table<br /> * '''Path to result''' – Path to result<br /> <br /> [[Category:Analyses]]<br /> [[Category:Genome enhancer (analyses group)]]<br /> [[Category:Biosoft analyses]]<br /> [[Category:Autogenerated pages]]</div>

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