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author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
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1 <tool id="fasta2phylip-e" name="FASTA2PHYLIP-E" version="1.0">
2 <description>Convert Aligned FASTA to PHYLIP extended</description>
3 <command interpreter="perl">
4 seqConverterG.pl -d$input $format -O$output
5 </command>
6 <inputs>
7 <param name="input" type="data" format="fasta" label="Input Fasta File" help="Aligned fasta" />
8 <param name="format" type="select" label="Output Format">
9 <option value="-ope">Phylip extended</option>
10 <option value="-opc">Phylip classic</option>
11 <option value="-on">Nexus</option>
12 </param>
13 </inputs>
14 <outputs>
15 <data format="txt" name="output" label="${tool.name} on ${on_string}: output file" />
16 </outputs>
17 <help>
18 **What it does**
19
20 FASTA2PHYLIP-E uses seqConverter.pl (Bininda-Emonds, 2010) to convert an aligned FASTA input file to PHYLIP extended file format.
21
22 ------
23
24 **Inputs**
25
26 Aligned FASTA file.
27
28 ------
29
30 **Outputs**
31
32 PHYLIP extended file.
33
34 ------
35
36 **Citations**
37
38 This tool is part of the Osiris Phylogenetics Tool Package for Galaxy. If you make extensive use of this tool in a
39 publication, please consider citing the following.
40
41 Current Osiris Citation is here
42
43 http://osiris-phylogenetics.blogspot.com/2012/10/citation.html
44
45 Additional Citations for this tool
46
47 Bininda-Emonds, O.R.P. 2010. seqConverter.pl. Program distributed by the author. AG Systematik und
48 Evolutionsbiologie, IBU - Fakultät V, Carl von Ossietzky Universität Oldenburg.
49
50 http://www.molekularesystematik.uni-oldenburg.de/33997.html#Sequences
51
52 </help>
53 </tool>