Mercurial > repos > galaxyp > peptideshaker
diff README.md @ 0:0578e296cab4 draft
Initial commit.
author | galaxyp |
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date | Fri, 10 May 2013 17:58:22 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.md Fri May 10 17:58:22 2013 -0400 @@ -0,0 +1,40 @@ +Tool wrapper for SearchGUI + PeptideShaker. This tool takes any number +of mgf files and performs X! Tandem and OMSSA searches on these via +SearchGUI and merges the results using PeptideShaker. + +For Galaxy-P we are installing this tool via CloudBioLinux +(https://github.com/jmchilton/cloudbiolinux/blob/proteomics/cloudbio/custom/bio_proteomics.py). While +this fabric script may not be exactly appropriate for your environment +it may serve as a template for how to install this software. In +particular these tools require CLI wrappers to be placed for +PeptideShaker and SearchGUI that can be installed as demostrated in +these fabric functions. + +Note: Also SearchGUI requires a version greater than 1.12.2 which +contained several bugs preventing this from working on the +command-line and via Linux. + +Also, PeptideShaker may require xvfb to simulate an X environment if +this is installed on a headless server. +# Obtaining Tools + +Repositories for all Galaxy-P tools can be found at +https:/bitbucket.org/galaxyp/. + +# Contact + +Please send suggestions for improvements and bug reports to +jmchilton@gmail.com. + +# License + +All Galaxy-P tools are licensed under the Apache License Version 2.0 +unless otherwise documented. + +# Tool Versioning + +Galaxy-P tools will have versions of the form X.Y.Z. Versions +differing only after the second decimal should be completely +compatible with each other. Breaking changes should result in an +increment of the number before and/or after the first decimal. All +tools of version less than 1.0.0 should be considered beta.