Mercurial > repos > iuc > hyphy_strike_ambigs
view hyphy_strike_ambigs.xml @ 5:79dc560d8ea3 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit 9fa2234b56facaf70fce12e5c60638d801997594"
author | iuc |
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date | Fri, 18 Jun 2021 15:31:51 +0000 |
parents | 7c86ceaf523c |
children | dc8875a13914 |
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<?xml version="1.0"?> <tool id="hyphy_strike_ambigs" name="Replace ambiguous codons" version="@VERSION@"> <description>in a multiple alignment using HyPhy</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="exit_code"><![CDATA[ hyphy '$__tool_directory__/scripts/strike-ambigs.bf' --alignment '$alignment' --output '$output' @ERRORS@ ]]></command> <inputs> <param name="alignment" type="data" format="fasta" label="Input alignment" /> </inputs> <outputs> <data name="output" format="fasta" /> </outputs> <tests> <test> <param name="alignment" ftype="fasta" value="strike-ambigs-in1.fa"/> <output name="output" file="strike-ambigs-out1.fa" /> </test> <test> <param name="alignment" ftype="fasta" value="strike-ambigs-in2.fa"/> <output name="output" file="strike-ambigs-out2.fa" /> </test> </tests> <help><![CDATA[ HyPhy Strike-Ambigs =================== Reads an alignment of coding sequences and replaces any ambiguous codons with ---. Note: The input fasta must be aligned along codon boundaries. ]]></help> <expand macro="citations"> <citation type="doi">10.1093/bioinformatics/bti079</citation> </expand> </tool>