Mercurial > repos > ucsb-phylogenetics > osiris_phylogenetics
diff phyloconversion/addstring2fashead.xml @ 0:5b9a38ec4a39 draft default tip
First commit of old repositories
author | osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu> |
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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/addstring2fashead.xml Tue Mar 11 12:19:13 2014 -0700 @@ -0,0 +1,51 @@ +<tool id="addstring2fashead" name="AddString2FAShead" version="1.0"> + <description>Converts FASTA file with sequences from same species and gene family to PHYTAB format</description> + <command interpreter="perl"> + addstring2fashead.pl $infile $species > $outfile + 2>&1 + </command> + <inputs> + <param name="infile" type="data" format="fasta" label="Input File" help="fasta file to convert" /> + <param name="species" type="text" format="tabular" label="Text string" help="" /> + </inputs> + <outputs> + <data format="tabular" name="outfile" label="${tool.name} on ${on_string}: Out file" /> + </outputs> + <help> +**What it does** + +This tool adds a text string to the beginning of all headers of an input file in FASTA format. The FASTA +input file should have sequences from the same species and gene family. The output is a PHYTAB format file. + +------ + +**Inputs** + +FASTA file of sequences from same species and gene family. FASTA format: +http://www.ncbi.nlm.nih.gov/blast/blastcgihelp.shtml + +------ + +**Outputs** + +PHYTAB file format. Description: +http://osiris-phylogenetics.blogspot.com/2012/09/introduction-to-phytab-format.html + +------- + +**Additional Information** + +Please direct questions or comments to ucsb_phylogenetics@lifesci.ucsb.edu or, if you can, enter them on the osiris_phylogenetics site at bitbucket.org + +------ + +**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 + </help> +</tool>