Mercurial > repos > ucsb-phylogenetics > osiris_phylogenetics
comparison 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 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:5b9a38ec4a39 |
---|---|
1 <tool id="mview" name="MView" version="1.0"> | |
2 <description>View multiple sequence alignment in HTML</description> | |
3 <requirements><requirement type="package">mview</requirement></requirements> | |
4 <command interpreter="perl">mview.pl $input $dna > $output </command> | |
5 <inputs> | |
6 <param format="fasta" name="input" type="data" label="Aligned fasta file to visualize" /> | |
7 <param name="dna" type="select" label="Data type"> | |
8 <option value="DNA">DNA</option> | |
9 <option value="Protein">Protein</option> | |
10 </param> | |
11 | |
12 </inputs> | |
13 <outputs> | |
14 <data format="html" name="output" label="${tool.name} on ${on_string}: Alignment" /> | |
15 </outputs> | |
16 <help> | |
17 **What it does** | |
18 | |
19 From the MView website: http://bio-mview.sourceforge.net/ | |
20 | |
21 MView reformats the results of a sequence database search or a multiple alignment adding optional HTML markup to control coloring and webpage layout. | |
22 | |
23 ------ | |
24 | |
25 **Inputs** | |
26 | |
27 FASTA | |
28 | |
29 ------ | |
30 | |
31 **Outputs** | |
32 | |
33 HTML | |
34 | |
35 ------- | |
36 | |
37 **Additional Information** | |
38 | |
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 | |
40 | |
41 ------- | |
42 | |
43 **Citations** | |
44 | |
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 | |
46 citing the following. | |
47 | |
48 Current Osiris Citation is here | |
49 | |
50 http://osiris-phylogenetics.blogspot.com/2012/10/citation.html | |
51 | |
52 Additional Citations for this tool | |
53 | |
54 Citation for MView: | |
55 | |
56 Brown, N.P., Leroy C., Sander C. (1998). MView: A Web compatible database search or multiple alignment viewer. Bioinformatics. 14(4):380-381. | |
57 | |
58 </help> | |
59 </tool> |