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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="mview" name="MView" version="1.0">
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2 <description>View multiple sequence alignment in HTML</description>
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3 <requirements><requirement type="package">mview</requirement></requirements>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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4 <command interpreter="perl">mview.pl $input $dna > $output </command>
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5 <inputs>
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6 <param format="fasta" name="input" type="data" label="Aligned fasta file to visualize" />
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7 <param name="dna" type="select" label="Data type">
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8 <option value="DNA">DNA</option>
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9 <option value="Protein">Protein</option>
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10 </param>
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11
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12 </inputs>
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13 <outputs>
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14 <data format="html" name="output" label="${tool.name} on ${on_string}: Alignment" />
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15 </outputs>
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16 <help>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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17 **What it does**
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18
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19 From the MView website: http://bio-mview.sourceforge.net/
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20
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21 MView reformats the results of a sequence database search or a multiple alignment adding optional HTML markup to control coloring and webpage layout.
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22
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23 ------
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24
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25 **Inputs**
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26
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27 FASTA
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28
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29 ------
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30
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31 **Outputs**
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32
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33 HTML
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34
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35 -------
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36
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37 **Additional Information**
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38
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39 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
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40
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41 -------
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42
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43 **Citations**
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44
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45 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
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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46 citing the following.
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47
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48 Current Osiris Citation is here
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49
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50 http://osiris-phylogenetics.blogspot.com/2012/10/citation.html
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51
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52 Additional Citations for this tool
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53
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54 Citation for MView:
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55
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56 Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible database search or multiple alignment viewer. Bioinformatics. 14(4):380-381.
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57
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58 </help>
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59 </tool>