Mercurial > repos > galaxyp > peptideshaker

comparison README_REPO.md @ 0:0578e296cab4 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Initial commit.
author galaxyp
date Fri, 10 May 2013 17:58:22 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:0578e296cab4
1 Tool wrapper for SearchGUI + PeptideShaker. This tool takes any number
2 of mgf files and performs X! Tandem and OMSSA searches on these via
3 SearchGUI and merges the results using PeptideShaker.
4
5 For Galaxy-P we are installing this tool via CloudBioLinux
6 (https://github.com/jmchilton/cloudbiolinux/blob/proteomics/cloudbio/custom/bio_proteomics.py). While
7 this fabric script may not be exactly appropriate for your environment
8 it may serve as a template for how to install this software. In
9 particular these tools require CLI wrappers to be placed for
10 PeptideShaker and SearchGUI that can be installed as demostrated in
11 these fabric functions.
12
13 Note: Also SearchGUI requires a version greater than 1.12.2 which
14 contained several bugs preventing this from working on the
15 command-line and via Linux.
16
17 Also, PeptideShaker may require xvfb to simulate an X environment if
18 this is installed on a headless server.