Mercurial > repos > rnateam > compalignp
view compalignp.xml @ 0:7e55ac3bd458 draft
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author | rnateam |
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date | Tue, 09 Jun 2015 05:36:03 -0400 |
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children | f3a318881b1b |
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<tool id="compalignp" name="Compalignp" version="1.0"> <description>Fractional identities between alignments</description> <requirements> <requirement type="package" version="1.0">compalignp</requirement> </requirements> <stdio> <exit_code range="1:" level="fatal" description="Error occurred. Please check Tool Standard Error" /> <exit_code range=":-1" level="fatal" description="Error occurred. Please check Tool Standard Error" /> </stdio> <command> <![CDATA[ compalignp -t $rna_alignment_target -r $rna_alignment_reference > $output ]]> </command> <inputs> <param format="clustalw,stockholm" name="rna_alignment_target" type="data" label="Target RNA Alignment" help="(-t)" /> <param format="clustalw,stockholm" name="rna_alignment_reference" type="data" label="Reference RNA Alignment" help="(-r)" /> </inputs> <outputs> <data name="output" format="txt" /> </outputs> <tests> <test> <param name="rna_alignment_target" value="eukaryotic-trnas_2.1.clustal"/> <param name="rna_alignment_reference" value="eukaryotic-trnas_2.1.clustal"/> <output name="output" file="eukaryotic-trnas_2.1.out"/> </test> </tests> <help> <![CDATA[ **compalignp** > Paranoia version of squids compalign. Compute fractional "identity" between trusted alignment and test alignment Identity of the multiple sequence alignments is defined as the averaged identity over all N(N-1)/2 pairwise alignments. ]]> </help> <citations> <citation type="doi">10.1186/1748-7188-1-19</citation> </citations> </tool>