https://wiki.anunna.wur.nl/index.php?action=history&feed=atom&title=Cufflinks 2026-04-18T16:19:44Z Revision history for this page on the wiki MediaWiki 1.43.1 https://wiki.anunna.wur.nl/index.php?title=Cufflinks&diff=1213&oldid=prev 2014-03-15T16:59:13Z

<p></p> <table style="background-color: #fff; color: #202122;" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 18:59, 15 March 2014</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l29">Line 29:</td> <td colspan="2" class="diff-lineno">Line 29:</td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Downloaded as pre-compiled binaries on 15-03-2014:</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Downloaded as pre-compiled binaries on 15-03-2014:</div></td></tr> <tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; 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://<del style="font-weight: bold; text-decoration: none;">tophat</del>.cbcb.umd.edu/downloads/<del style="font-weight: bold; text-decoration: none;">tophat</del>-2.<del style="font-weight: bold; text-decoration: none;">0</del>.<del style="font-weight: bold; text-decoration: none;">11</del>.Linux_x86_64.tar.gz</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; 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://<ins style="font-weight: bold; text-decoration: none;">cufflinks</ins>.cbcb.umd.edu/downloads/<ins style="font-weight: bold; text-decoration: none;">cufflinks</ins>-2.<ins style="font-weight: bold; text-decoration: none;">1</ins>.<ins style="font-weight: bold; text-decoration: none;">1</ins>.Linux_x86_64.tar.gz</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== See also ==</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>== See also ==</div></td></tr> </table>

Megen002 https://wiki.anunna.wur.nl/index.php?title=Cufflinks&diff=1212&oldid=prev 2014-03-15T16:58:20Z

<p>Created page with &quot;&#039;&#039;&#039;[http://cufflinks.cbcb.umd.edu Cufflinks]&#039;&#039;&#039; assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples. It ...&quot;</p> <p><b>New page</b></p><div>&#039;&#039;&#039;[http://cufflinks.cbcb.umd.edu Cufflinks]&#039;&#039;&#039; assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples. It accepts aligned RNA-Seq reads and assembles the alignments into a parsimonious set of transcripts. Cufflinks then estimates the relative abundances of these transcripts based on how many reads support each one, taking into account biases in library preparation protocols. <br /> <br /> == Module file ==<br /> The module file can be found in this location:<br /> /cm/shared/modulefiles/SHARED/<br /> <br /> &lt;source lang=&#039;tcl&#039;&gt;<br /> #%Module1.0#######################################################################<br /> ## cufflinks 2.1.1 modulefile<br /> ##<br /> proc ModulesHelp { } {<br /> <br /> puts stderr &quot;\tAdds cufflinks 2.1.1 to your environment&quot;<br /> }<br /> <br /> module-whatis &quot;Adds cufflinks 2.1.1 to your environment&quot;<br /> <br /> module load tophat/2.0.11 bowtie/2-2.2.1<br /> <br /> set cufflinks_211_root /cm/shared/apps/SHARED/cufflinks/cufflinks-2.1.1.Linux_x86_64/<br /> <br /> prepend-path PATH $cufflinks_211_root<br /> <br /> <br /> <br /> &lt;/source&gt;<br /> <br /> == Installation details ==<br /> <br /> Downloaded as pre-compiled binaries on 15-03-2014:<br /> http://tophat.cbcb.umd.edu/downloads/tophat-2.0.11.Linux_x86_64.tar.gz<br /> <br /> == See also ==<br /> * [[Globally_installed_software | Globally installed software]]<br /> * [[ABGC_modules | ABGC specific modules]]<br /> <br /> == External links ==<br /> * [http://cufflinks.cbcb.umd.edu Cufflinks home page]</div>

Megen002