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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="gb2phytab" name="GB2PHYTAB" version="1.0">
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2 <description> Convert GenBank format flat file to PHYTAB tabular file </description>
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3 <requirements>
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4 <requirement type="package">raxml</requirement>
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5 </requirements>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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6 <command interpreter="perl">
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7 gb2phytab.pl $data_file $outfile 2>&amp;1
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8 </command>
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9 <inputs>
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10 <param format="txt" name="data_file" type="data" label="Genbank format infile." help="Can download from GenBank with get_gb and get_1_gb"/>
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11 </inputs>
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12 <outputs>
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13 <data format="tabular" name="outfile" label="Phytab file from ${on_string}" />
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14 </outputs>
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15 <help>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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16 **What it does**
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17
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18 This tool converts a file in the GenBank (NCBI) flat file format to the PHYTAB tabular format.
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19
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20 ------
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21
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22 **Inputs**
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23
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24 GenBank flat file format. Description: http://www.ncbi.nlm.nih.gov/Sitemap/samplerecord
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25
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26 ------
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27
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28 **Outputs**
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29
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30 PHYTAB tabular file format. Description::
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31 http://osiris-phylogenetics.blogspot.com/2012/09/introduction-to-phytab-format.html
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32
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33 ------
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34
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35 **Additional Information**
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36
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37 Please direct questions or comments to ucsb_phylogenetics@lifesci.ucsb.edu or, if you can, enter them on the
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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38 osiris_phylogenetics site at bitbucket.org
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39
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40 ------
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41
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42 **Citations**
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43
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44 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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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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45 publication, please consider citing the following.
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46
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47 Current Osiris Citation is here
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48
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49 http://osiris-phylogenetics.blogspot.com/2012/10/citation.html
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50 </help>
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51 </tool>