Mercurial > repos > ucsb-phylogenetics > osiris_phylogenetics
diff phyloconversion/fasta2phylip-e.xml @ 0:5b9a38ec4a39 draft default tip
First commit of old repositories
| author | osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu> |
|---|---|
| date | Tue, 11 Mar 2014 12:19:13 -0700 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloconversion/fasta2phylip-e.xml Tue Mar 11 12:19:13 2014 -0700 @@ -0,0 +1,53 @@ +<tool id="fasta2phylip-e" name="FASTA2PHYLIP-E" version="1.0"> + <description>Convert Aligned FASTA to PHYLIP extended</description> + <command interpreter="perl"> + seqConverterG.pl -d$input $format -O$output + </command> + <inputs> + <param name="input" type="data" format="fasta" label="Input Fasta File" help="Aligned fasta" /> + <param name="format" type="select" label="Output Format"> + <option value="-ope">Phylip extended</option> + <option value="-opc">Phylip classic</option> + <option value="-on">Nexus</option> + </param> + </inputs> + <outputs> + <data format="txt" name="output" label="${tool.name} on ${on_string}: output file" /> + </outputs> + <help> +**What it does** + +FASTA2PHYLIP-E uses seqConverter.pl (Bininda-Emonds, 2010) to convert an aligned FASTA input file to PHYLIP extended file format. + +------ + +**Inputs** + +Aligned FASTA file. + +------ + +**Outputs** + +PHYLIP extended file. + +------ + +**Citations** + +This tool is part of the Osiris Phylogenetics Tool Package for Galaxy. If you make extensive use of this tool in a +publication, please consider citing the following. + +Current Osiris Citation is here + +http://osiris-phylogenetics.blogspot.com/2012/10/citation.html + +Additional Citations for this tool + +Bininda-Emonds, O.R.P. 2010. seqConverter.pl. Program distributed by the author. AG Systematik und +Evolutionsbiologie, IBU - Fakultät V, Carl von Ossietzky Universität Oldenburg. + +http://www.molekularesystematik.uni-oldenburg.de/33997.html#Sequences + + </help> +</tool>