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Question: Matlab + Galaxy
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gravatar for do kadya
4.8 years ago by
do kadya • 130
do kadya • 130 wrote:
Hi, How can I call Matlab command in Galaxy ? I refer this link, but don't know how to use it. https://wiki.galaxyproject.org/HelpOnParsers?action=fullsearch&context =180&value=mutsig&fullsearch=Text I am learning Galaxy, hence don't know much about it. Can i write that command in xml file to integrate it as tool ? I am using below website to create xml files for Matlab. Is it good website to create xml files ? http://cli-mate.lumc.nl/define# Waiting for positive reply.
galaxy • 1.2k views
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modified 4.8 years ago by Bjoern Gruening ♦ 5.1k • written 4.8 years ago by do kadya • 130
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gravatar for Bjoern Gruening
4.8 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k wrote:
Hi, I think you should start here: https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax Furthermore, Peters Blast wrappers are always a good start to learn writing Galaxy Tools. https://github.com/peterjc/galaxy_blast Here you can find a variety of small to complex wrappers: https://github.com/bgruening/galaxytools All of them should be a good start to integrate your matlab script. But the first step would be to make your script commandline accessible. If its possible consider to use octave as alternative. In that way you can share you wrapper with everyone, also with peoples that do not have a matlab license. Cheers, Bjoern
ADD COMMENT • link written 4.8 years ago by Bjoern Gruening ♦ 5.1k
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