GSVA specifications

Information


Unique identifier OMICS_06741
Name GSVA
Alternative name Gene Set Variation Analysis
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.8.0
Stability Stable
Requirements methods, GSEABase
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Justin Guinney <>

GSVA article

GSVA institution(s)
Research Program on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Catalonia, Spain; Department of Experimental and Health Sciences, Universitat Pompeu Fabra, Barcelona, Catalonia, Spain; Sage Bionetworks, Seattle, WA, USA

GSVA review

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Dr Nick

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Desktop
If you take the time to dissect and understand the mathematics behind the tool, as well as tweak your R code to format custom reference lists beyond KEGG and GO, it turns out to be a fantastic tool for assessing reference enrichments within your query set on a sample by sample basis. However, be warned that very low sample numbers are problematic, and if you intend to compare conditions, I personally recommend doing so in binary fashion as the scoring is dependent on the universe of your input.

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