Mercurial > repos > xuebing > sharplabtool
view tools/emboss_5/emboss_newcpgreport.xml @ 1:cdcb0ce84a1b
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author | xuebing |
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date | Fri, 09 Mar 2012 19:45:15 -0500 |
parents | 9071e359b9a3 |
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<tool id="EMBOSS: newcpgreport57" name="newcpgreport" version="5.0.0"> <description>Report CpG rich areas</description> <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements> <command>newcpgreport -sequence $input1 -window $window -shift $shift -minlen $minlen -minpc $minpc -outfile $out_file1 -minoe $minoe -auto</command> <inputs> <param format="data" name="input1" type="data"> <label>Sequence</label> </param> <param name="window" size="4" type="text" value="100"> <label>Window Size</label> </param> <param name="shift" size="4" type="text" value="1"> <label>Step size (shift)</label> </param> <param name="minlen" size="4" type="text" value="200"> <label>Minimum length</label> </param> <param name="minoe" size="4" type="text" value="0.6"> <label>Minimum average observed to expected ratio</label> </param> <param name="minpc" size="4" type="text" value="50.0"> <label>Minimum average percentage of G plus C</label> </param> </inputs> <outputs> <data format="newcpgreport" name="out_file1" /> </outputs> <tests> <test> <param name="input1" value="2.fasta"/> <param name="window" value="100"/> <param name="shift" value="1"/> <param name="minlen" value="200"/> <param name="minoe" value="0.6"/> <param name="minpc" value="50.0"/> <output name="out_file1" file="emboss_newcpgreport_out.newcpgreport"/> </test> </tests> <help> You can view the original documentation here_. .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/newcpgreport.html </help> </tool>