Mercurial > repos > devteam > emboss_5
diff emboss_dottup.xml @ 10:9b98d3d903c6 draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/emboss_5 commit fc158bfe5f5927dc199321a2cf43310373cbc8ba
author | devteam |
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date | Fri, 12 Aug 2016 19:17:10 -0400 |
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children | 0e2484b6829b |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/emboss_dottup.xml Fri Aug 12 19:17:10 2016 -0400 @@ -0,0 +1,38 @@ +<tool id="EMBOSS: dottup26" name="dottup" version="5.0.0"> + <description>Displays a wordmatch dotplot of two sequences</description> + <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements> + <command interpreter="perl">emboss_single_outputfile_wrapper.pl dottup -asequence $input1 -bsequence $input2 -goutfile $out_file1 -wordsize $wordsize -boxit $boxit -graph png -xygraph png -auto</command> + <inputs> + <param format="data" name="input1" type="data"> + <label>Sequence 1</label> + </param> + <param format="data" name="input2" type="data"> + <label>Sequence 2</label> + </param> + <param name="wordsize" type="text" value="4"> + <label>Word size</label> + </param> + <param name="boxit" type="select"> + <label>Draw a box around dotplot</label> + <option value="yes">Yes</option> + <option value="no">No</option> + </param> + </inputs> + <outputs> + <data format="png" name="out_file1" /> + </outputs> + <!-- functional tests not possible since image output contains file name information and timestamp --> + <help> + You can view the original documentation here_. + + .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/dottup.html + +------ + +**Citation** + +For the underlying tool, please cite `Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000 Jun;16(6):276-7. <http://www.ncbi.nlm.nih.gov/pubmed/10827456>`_ + +If you use this tool in Galaxy, please cite `Blankenberg D, Taylor J, Schenck I, He J, Zhang Y, Ghent M, Veeraraghavan N, Albert I, Miller W, Makova KD, Hardison RC, Nekrutenko A. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. Genome Res. 2007 Jun;17(6):960-4. <http://www.ncbi.nlm.nih.gov/pubmed/17568012>`_ + </help> +</tool> \ No newline at end of file