[2] | 1 | <tool id="EMBOSS: cai_custom6" name="cai custom" version="5.0.0">
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| 2 | <description>CAI codon adaptation index using custom codon usage file</description>
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| 3 | <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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| 4 | <command>cai -seqall $input1 -outfile $out_file1 -cfile $input2 -auto</command>
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| 5 | <inputs>
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| 6 | <param format="fasta" name="input1" type="data">
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| 7 | <label>On query</label>
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| 8 | </param>
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| 9 | <param format="txt" name="input2" type="data">
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| 10 | <label>Codon Usage File</label>
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| 11 | </param>
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| 12 | </inputs>
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| 13 | <outputs>
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| 14 | <data format="txt" name="out_file1" />
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| 15 | </outputs>
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| 16 | <help> |
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| 17 | .. class:: warningmark |
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| 18 | |
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| 19 | The input dataset needs to be sequences. |
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| 20 | |
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| 21 | ----- |
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| 22 | |
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| 23 | You can view the original documentation here_. |
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| 24 | |
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| 25 | .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/cai_custom.html |
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| 26 | </help> |
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| 27 | </tool> |
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