Mercurial > repos > xuebing > sharplabtool
diff tools/emboss_5/emboss_compseq.xml @ 0:9071e359b9a3
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author | xuebing |
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date | Fri, 09 Mar 2012 19:37:19 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tools/emboss_5/emboss_compseq.xml Fri Mar 09 19:37:19 2012 -0500 @@ -0,0 +1,42 @@ +<tool id="EMBOSS: compseq14" name="compseq" version="5.0.0"> + <description>Count composition of dimer/trimer/etc words in a sequence</description> + <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements> + <command>compseq -sequence $input1 -outfile $out_file1 -word $word -frame $frame -auto</command> + <inputs> + <param format="fasta" name="input1" type="data"> + <label>On query</label> + </param> + <param name="word" size="4" type="text" value="2"> + <label>Size of word (window) to count</label> + </param> + <param name="frame" type="select"> + <label>Frame to inspect</label> + <option value="0">All Frames</option> + <option value="1">Frame 1</option> + <option value="2">Frame 2</option> + <option value="3">Frame 3</option> + </param> + </inputs> + <outputs> + <data format="compseq" name="out_file1" /> + </outputs> + <tests> + <test> + <param name="input1" value="2.fasta"/> + <param name="word" value="2"/> + <param name="frame" value="0"/> + <output name="out_file1" file="emboss_compseq_out.compseq"/> + </test> + </tests> + <help> +.. class:: warningmark + +The input dataset needs to be sequences. + +----- + + You can view the original documentation here_. + + .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/compseq.html + </help> +</tool>