Mercurial > repos > galaxyp > psm_eval
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author | galaxyp |
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date | Fri, 26 Sep 2014 14:52:07 -0400 |
parents | 77cc9cc99e15 |
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--- a/README.md Fri Jul 12 12:40:08 2013 -0400 +++ b/README.md Fri Sep 26 14:52:07 2014 -0400 @@ -1,31 +1,57 @@ -# Peptide-Spectrum Match Evaluator (psm_eval) +GalaxyP - Peptide-Spectrum Match Evaluator +========================================== + +* Home: <https://bitbucket.org/galaxyp/psm_eval> +* Galaxy Tool Shed: <http://toolshed.g2.bx.psu.edu/view/galaxyp/psm_eval> +* Tool ID: `psm_eval` + -This repository contains the psm_eval tool that allows for -re-evaulation of identified PSM based on multiple, flexiable user -supplied critiria and produces results that can be used to visualize -PSMs using ProtVis -(https://github.com/jmchilton/protvis/tree/lorikeet-reintegration). +Description +----------- + +Contains the psm_eval tool that allows for re-evaluation of identified PSM based on multiple, flexible user supplied criteria and produces results that can be used to visualize PSMs using ProtVis. + +See: + +* https://github.com/jmchilton/protvis/tree/lorikeet-reintegration +* <https://bitbucket.org/Andrew_Brock/proteomics-visualise> +* Note, unrelated to: <http://mbostock.github.io/protovis/> + +System dependency note: The Python package `lxml` is used, which requires these system libraries to be installed: libxml2-devel, libxslt-devel -# Obtaining Tools +GalaxyP Community +----------------- -Repositories for all Galaxy-P tools can be found at -https:/bitbucket.org/galaxyp/. +Current governing community policies for [GalaxyP](https://bitbucket.org/galaxyp/) and other information can be found at: + +<https://bitbucket.org/galaxyp/galaxyp> + -# Contact +License +------- -Please send suggestions for improvements and bug reports to -jmchilton@gmail.com. +Copyright (c) 2014 Regents of the University of Minnesota and Authors listed below. + +To the extent possible under law, the author(s) have dedicated all copyright and related and neighboring rights to this software to the public domain worldwide. This software is distributed without any warranty. + +You should have received a copy of the CC0 Public Domain Dedication along with this software. If not, see <https://creativecommons.org/publicdomain/zero/1.0/>. -# License +You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission. + -All Galaxy-P tools are licensed under the Apache License Version 2.0 -unless otherwise documented. +Contributing +------------ + +Contributions to this repository are reviewed through pull requests. If you would like your work acknowledged, please also add yourself to the Authors section. If your pull request is accepted, you will also be acknowledged in <https://bitbucket.org/galaxyp/galaxyp/CONTRIBUTORS.md> unless you opt-out. + -# Tool Versioning +Authors +------- + +Authors and contributors: -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. +* Cody Wang +* Fred Sadler +* John Chilton <jmchilton@gmail.com> +* Minnesota Supercomputing Institute, Univeristy of Minnesota