recipe searchgui

User-friendly graphical tool for using proteomics identification search engines

Homepage:

https://github.com/compomics/searchgui

License:

APACHE / Apache License 2.0

Recipe:

/searchgui/meta.yaml

Links:

biotools: searchgui, usegalaxy-eu: search_gui, doi: 10.1002/pmic.201000595

SearchGUI is a user-friendly open-source graphical user interface for configuring and running proteomics identification search engines, currently supporting X!Tandem, MS-GF+, MetaMorpheus, MS Amanda, MyriMatch, Comet, Tide, Andromeda and OMSSA.

package searchgui

(downloads) docker_searchgui

Versions:
4.2.9-0,  4.1.24-0,  4.0.41-1,  4.0.41-0,  4.0.33-0,  4.0.32-0,  4.0.25-2,  4.0.25-0,  4.0.22-1, 

4.2.9-0,  4.1.24-0,  4.0.41-1,  4.0.41-0,  4.0.33-0,  4.0.32-0,  4.0.25-2,  4.0.25-0,  4.0.22-1,  4.0.22-0,  4.0.12-0,  4.0.7-0,  4.0.4-1,  4.0.4-0,  4.0.1.alpha-0,  3.3.10-0,  3.3.9-1,  3.3.9-0,  3.3.6-1,  3.3.5-1,  3.3.3-1,  3.3.1-1,  3.3.1-0,  3.2.26-0,  3.2.24-0,  3.2.20-0,  3.2.13-1,  3.2.13-0,  3.2.11-1,  3.2.11-0,  3.2.8-1,  3.2.8-0,  3.2.7-1,  3.2.7-0,  3.2.6-1,  3.2.6-0,  3.2.5-1,  3.2.5-0,  3.2.3-1,  3.2.3-0,  3.1.4-2,  3.1.4-1,  3.1.4-0,  2.9.0-2,  2.9.0-1,  2.9.0-0,  2.1.4-3,  2.1.4-2,  2.1.4-1,  2.1.4-0

Depends:
Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install searchgui

and update with:

conda update searchgui

or use the docker container:

docker pull quay.io/biocontainers/searchgui:<tag>

(see searchgui/tags for valid values for <tag>)

Notes

SearchGUI 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 -Xmx4g" 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 "searchgui -Xms512m -Xmx8g"

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