Mercurial > repos > galaxyp > peptideshaker
comparison README_REPO.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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| -1:000000000000 | 0:0578e296cab4 |
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| 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. |