https://wiki.biouml.org/index.php?action=history&feed=atom&title=Analyze_any_DNA_sequence%2C_Fasta_%28workflow%29 2026-04-13T10:19:26Z Revision history for this page on the wiki MediaWiki 1.20.3 https://wiki.biouml.org/index.php?title=Analyze_any_DNA_sequence,_Fasta_(workflow)&diff=7829&oldid=prev 2019-03-12T09:34:34Z

<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 09:34, 12 March 2019</td> </tr><tr><td colspan="2" class="diff-lineno">Line 6:</td> <td colspan="2" class="diff-lineno">Line 6:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[File:Analyze-any-DNA-sequence-Fasta-workflow-overview.png|400px]]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[File:Analyze-any-DNA-sequence-Fasta-workflow-overview.png|400px]]</div></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>This workflow is designed to analyze a DNA sequence for potential binding sites<del class="diffchange diffchange-inline">. Sequences should be in Fasta format</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>This workflow is designed to analyze a DNA sequence for potential <ins class="diffchange diffchange-inline">transcription factor </ins>binding sites. &#160;</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'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">Sample data file for this workflow can </del>be <del class="diffchange diffchange-inline">found </del>in <del class="diffchange diffchange-inline">data/Examples/Sample data/Data/DNA sequence formats/..</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">'''The sequence should </ins>be in <ins class="diffchange diffchange-inline">FASTA format</ins>.<ins class="diffchange diffchange-inline">'''</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'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">Please, export the proper </del>file<del class="diffchange diffchange-inline">, save it locally and then use as a test data </del>for this workflow<del class="diffchange diffchange-inline">. Alternatively, you may select to take the </del>sample <del class="diffchange diffchange-inline">file directly from the repository. For this in the import dialog you should tap the arrow (located right to the import file field) and select &quot;Select from repository&quot;, then select any generic file</del>.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">A sample data </ins>file for this workflow <ins class="diffchange diffchange-inline">can be found here: data/Examples/Sample data/Data/DNA sequence formats/</ins>sample.<ins class="diffchange diffchange-inline">embl</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'>−</td><td style="background: #ffa; color:black; font-size: smaller;"><div>'''Note''': File Extension is important for proper format recognition. If you have difficulties in uploading <del class="diffchange diffchange-inline">files </del>(you see the message <del class="diffchange diffchange-inline">“'''''ERROR - Specified file is unsupported by importer'''''”</del>) export our examples and prepare your files accordingly.</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">The input file can be imported from your local computer, from the web or ftp server or from a respository within the platform. </ins>'''Note''': File Extension is important for proper format recognition <ins class="diffchange diffchange-inline">during import</ins>. If you have difficulties in uploading <ins class="diffchange diffchange-inline">your file </ins>(you see the message <ins class="diffchange diffchange-inline">&quot;Import failed&quot;</ins>)<ins class="diffchange diffchange-inline">, </ins>export our examples and prepare your files accordingly<ins class="diffchange diffchange-inline">.You can also drag and drop a raw sequence in FASTA format.</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">For free account users you can select between 4 different profiles of the GTRD database to search for TFBSs. Users with a valid TRANSFAC(R) license can select between &gt;200 different Transfac matrix collections.</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">Please define a result file name</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> </div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div> </div></td></tr> </table>

WikiBot https://wiki.biouml.org/index.php?title=Analyze_any_DNA_sequence,_Fasta_(workflow)&diff=6494&oldid=prev 2015-08-25T05:21:36Z

<p>Protected &quot;<a href="/index.php/Analyze_any_DNA_sequence,_Fasta_(workflow)" title="Analyze any DNA sequence, Fasta (workflow)">Analyze any DNA sequence, Fasta (workflow)</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 05:21, 25 August 2015</td> </tr></table>

WikiBot https://wiki.biouml.org/index.php?title=Analyze_any_DNA_sequence,_Fasta_(workflow)&diff=6489&oldid=prev 2015-08-25T05:21:32Z

<p>Automatic synchronization with BioUML</p> <p><b>New page</b></p><div>;Workflow title<br /> :Analyze any DNA sequence, Fasta<br /> ;Provider<br /> :[[geneXplain GmbH]]<br /> == Workflow overview ==<br /> [[File:Analyze-any-DNA-sequence-Fasta-workflow-overview.png|400px]]<br /> == Description ==<br /> This workflow is designed to analyze a DNA sequence for potential binding sites. Sequences should be in Fasta format.<br /> <br /> Sample data file for this workflow can be found in data/Examples/Sample data/Data/DNA sequence formats/...<br /> <br /> Please, export the proper file, save it locally and then use as a test data for this workflow. Alternatively, you may select to take the sample file directly from the repository. For this in the import dialog you should tap the arrow (located right to the import file field) and select &quot;Select from repository&quot;, then select any generic file.<br /> <br /> '''Note''': File Extension is important for proper format recognition. If you have difficulties in uploading files (you see the message “'''''ERROR - Specified file is unsupported by importer'''''”) export our examples and prepare your files accordingly.<br /> <br />  <br /> <br /> == Parameters ==<br /> ;Input file (Fasta)<br /> ;Profile<br /> ;Result file<br /> <br /> [[Category:Workflows]]<br /> [[Category:GeneXplain workflows]]<br /> [[Category:Autogenerated pages]]</div>

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