- recipe peptide-shaker
Independent platform for interpretation of proteomics identification results
- Homepage:
- License:
APACHE / Apache License 2.0
- Recipe:
- Links:
biotools: peptide-shaker, usegalaxy-eu: peptide_shaker, doi: 10.1038/nbt.3109
PeptideShaker is a search engine independent platform for interpretation of proteomics identification results from multiple search engines, currently supporting X!Tandem, MS-GF+, Metamorpheus, MS Amanda, OMSSA, MyriMatch, Comet, Tide, Mascot, Andromeda and mzIdentML. By combining the results from multiple search engines, while re-calculating PTM localization scores and redoing the protein inference, PeptideShaker attempts to give you the best possible understanding of your proteomics data!
- package peptide-shaker¶
-
- Versions:
2.2.17-0
,2.2.6-1
,2.2.6-0
,2.0.33-1
,2.0.33-0
,2.0.25-0
,2.0.18-1
,2.0.18-0
,2.0.15-1
,2.2.17-0
,2.2.6-1
,2.2.6-0
,2.0.33-1
,2.0.33-0
,2.0.25-0
,2.0.18-1
,2.0.18-0
,2.0.15-1
,2.0.15-0
,2.0.14-0
,2.0.9-0
,2.0.5-0
,2.0.1.alpha-0
,1.16.40-1
,1.16.40-0
,1.16.36-0
,1.16.35-1
,1.16.35-0
,1.16.32-1
,1.16.31-1
,1.16.30-1
,1.16.29-1
,1.16.26-1
,1.16.23-0
,1.16.22-0
,1.16.20-0
,1.16.17-0
,1.16.16-2
,1.16.16-1
,1.16.16-0
,1.16.15-2
,1.16.15-1
,1.16.15-0
,1.16.14-0
,1.16.13-2
,1.16.13-1
,1.16.13-0
,1.16.4-2
,1.16.4-1
,1.16.4-0
,1.16.3-2
,1.16.3-1
,1.16.3-0
,1.16.0-2
,1.16.0-1
,1.16.0-0
,1.15.1-0
,1.15.0-0
,1.14.6-0
,1.14.4-0
,1.13.6-1
,1.13.6-0
,1.13.3-1
,1.13.3-0
,1.11.0-1
,1.11.0-0
,1.1.3-3
,1.1.3-2
,1.1.3-1
- Depends:
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install peptide-shaker
and update with:
conda update peptide-shaker
or use the docker container:
docker pull quay.io/biocontainers/peptide-shaker:<tag>
(see peptide-shaker/tags for valid values for
<tag>
)
Notes¶
PeptideShaker is Java program that comes with a custom wrapper shell script. This shell wrapper is called "opsin" and is on $PATH by default. By default "-Xms512m -Xmx1g" is set in the wrapper. If you want to overwrite it you can specify these values directly after your binaries. If you have _JAVA_OPTIONS set globally this will take precedence. For example run it with "peptide-shaker -Xms512m -Xmx1g"
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/peptide-shaker/README.html)