Mercurial > repos > peterjc > tmhmm_and_signalp

comparison tools/protein_analysis/tmhmm2.xml @ 6:a290c6d4e658

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Migrated tool version 0.0.9 from old tool shed archive to new tool shed repository
author peterjc
date Tue, 07 Jun 2011 18:07:09 -0400
parents f3b373a41f81
children 9b45a8743100
comparison
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5:0f1c61998b22 6:a290c6d4e658
1 <tool id="tmhmm2" name="TMHMM 2.0" version="0.0.6"> 1 <tool id="tmhmm2" name="TMHMM 2.0" version="0.0.7">
2 <description>Find transmembrane domains in protein sequences</description> 2 <description>Find transmembrane domains in protein sequences</description>
3 <command interpreter="python"> 3 <command interpreter="python">
4 tmhmm2.py 8 $fasta_file $tabular_file 4 tmhmm2.py 8 $fasta_file $tabular_file
5 ##I want the number of threads to be a Galaxy config option... 5 ##I want the number of threads to be a Galaxy config option...
6 </command> 6 </command>
74 **References** 74 **References**
75 75
76 Krogh, Larsson, von Heijne, and Sonnhammer. 76 Krogh, Larsson, von Heijne, and Sonnhammer.
77 Predicting Transmembrane Protein Topology with a Hidden Markov Model: Application to Complete Genomes. 77 Predicting Transmembrane Protein Topology with a Hidden Markov Model: Application to Complete Genomes.
78 J. Mol. Biol. 305:567-580, 2001. 78 J. Mol. Biol. 305:567-580, 2001.
79 http://dx.doi.org/10.1006/jmbi.2000.4315
79 80
80 Sonnhammer, von Heijne, and Krogh. 81 Sonnhammer, von Heijne, and Krogh.
81 A hidden Markov model for predicting transmembrane helices in protein sequences. 82 A hidden Markov model for predicting transmembrane helices in protein sequences.
82 In J. Glasgow et al., eds.: Proc. Sixth Int. Conf. on Intelligent Systems for Molecular Biology, pages 175-182. AAAI Press, 1998. 83 In J. Glasgow et al., eds.: Proc. Sixth Int. Conf. on Intelligent Systems for Molecular Biology, pages 175-182. AAAI Press, 1998.
84 http://www.ncbi.nlm.nih.gov/pubmed/9783223
85
86 http://www.cbs.dtu.dk/services/TMHMM/
83 87
84 </help> 88 </help>
85 </tool> 89 </tool>