https://wiki.biouml.org/index.php?action=history&feed=atom&title=Sites_Motifs_Analysis 2026-04-13T03:27:08Z Revision history for this page on the wiki MediaWiki 1.20.3 https://wiki.biouml.org/index.php?title=Sites_Motifs_Analysis&diff=8845&oldid=prev 2020-12-09T11:14:58Z

<p>Protected &quot;<a href="/index.php/Sites_Motifs_Analysis" title="Sites Motifs Analysis">Sites Motifs 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 11:14, 9 December 2020</td> </tr></table>

WikiBot https://wiki.biouml.org/index.php?title=Sites_Motifs_Analysis&diff=8841&oldid=prev 2020-12-09T11:14:58Z

<p>Automatic synchronization with BioUML</p> <p><b>New page</b></p><div>;Analysis title<br /> :[[File:Default-analysis-icon.png]] Sites Motifs Analysis<br /> ;Provider<br /> :[[Institute of Systems Biology]]<br /> ;Class<br /> :{{Class|biouml.plugins.gtrd.analysis.SitesMotifsAnalysis}}<br /> ;Plugin<br /> :[[Biouml.plugins.gtrd (plugin)|biouml.plugins.gtrd (GTRD)]]<br /> <br /> ==== Description ====<br /> Count motives for SQL track + HOCOMOCO track<br /> <br /> ==== Parameters: ====<br /> <br /> * '''Sequences collection''' – Select a source of nucleotide sequences<br /> ** '''Sequences source''' – Select database to get sequences from or &lt;nowiki&gt;'&lt;/nowiki&gt;Custom&lt;nowiki&gt;'&lt;/nowiki&gt; to specify sequences location manually<br /> ** '''Sequence collection''' – Specify path to folder containing sequences if &lt;nowiki&gt;'&lt;/nowiki&gt;Custom&lt;nowiki&gt;'&lt;/nowiki&gt; sequences source is selected<br /> * '''Site name''' – Name of predicted sites<br /> * '''Path to track''' – Path to track with ChIP-Seq dataset<br /> * '''Use HOCOMOCO track''' – Choose HOCOMOCO track or use HOCOMOCO model for creating new HOCOMOCO track<br /> * '''output table name''' – write output table name<br /> * '''Record result to GTRD database''' – Record result to GTRD database<br /> * '''write new table''' – record new table to GTRD database<br /> * '''write data to existed table''' – record data to existed table in GTRD database<br /> * '''nameOfExistedTable''' – nameOfExistedTable<br /> * '''Number of thread''' – write number of threads (not more than 20)<br /> * '''onlyTrackl''' – onlyTrackl<br /> * '''Use only one model''' – Use only one HOCOMOCO model<br /> * '''Count cover of motifs''' – choose this one, if you need to count cover of motifs in sites<br /> * '''Use mouse matrix''' – Use mouse HOCOMOCO matrix<br /> * '''miniml site size''' – Choose miniml site&lt;nowiki&gt;'&lt;/nowiki&gt;s size<br /> * '''model name''' – write name of your model<br /> * '''Track&lt;nowiki&gt;'&lt;/nowiki&gt;s names in folder''' – Track&lt;nowiki&gt;'&lt;/nowiki&gt;s names in folder<br /> * '''modelPath''' – modelPath<br /> * '''Path to output folder''' – Path to output folder<br /> <br /> [[Category:Analyses]]<br /> [[Category:GTRD build (analyses group)]]<br /> [[Category:ISB analyses]]<br /> [[Category:Autogenerated pages]]</div>

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