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