diff alignment/mview.xml @ 0:5b9a38ec4a39 draft default tip

First commit of old repositories
author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
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+++ b/alignment/mview.xml	Tue Mar 11 12:19:13 2014 -0700
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+<tool id="mview" name="MView" version="1.0">
+	<description>View multiple sequence alignment in HTML</description>
+	<requirements><requirement type="package">mview</requirement></requirements>
+	<command interpreter="perl">mview.pl $input $dna > $output </command>
+	<inputs>
+		<param format="fasta" name="input" type="data" label="Aligned fasta file to visualize" />
+    		<param name="dna" type="select" label="Data type">
+      			<option value="DNA">DNA</option>
+      			<option value="Protein">Protein</option>
+		</param>
+
+	</inputs>
+	<outputs>
+		<data format="html" name="output" label="${tool.name} on ${on_string}: Alignment" />
+	</outputs>
+<help>
+**What it does**
+
+From the MView website: http://bio-mview.sourceforge.net/
+
+MView reformats the results of a sequence database search or a multiple alignment adding optional HTML markup to control coloring and webpage layout.
+
+------
+
+**Inputs**
+
+FASTA
+
+------
+
+**Outputs**
+
+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
+
+Additional Citations for this tool
+
+Citation for MView:
+
+Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible database search or multiple alignment viewer. Bioinformatics. 14(4):380-381.
+
+</help>
+</tool>