Martin Morgan mtmorgan at fhcrc.org
Sun Nov 23 21:10:32 CET 2008

Loren Engrav <engrav at u.washington.edu> writes:

> Greetings
> There is the GSEABase in Bioconductor

GSEABase provides infrastructure for managing sets of genes, and for
mapping between identifiers; it doesn't 'do' a gene set enrichment
analysis. Also, the GSEABase infrastructure came after other R-based
GSEA-like packages and so it may be a bit less useful for what it's
named after than its name suggests.

GSEA-like analyses in R include PGSEA, Category, GSEAlm, and probably
others. The reasons to choose between these and non-R tools is likely
to be driven by suitability of analysis for question at hand.


> But there is also the GSEA located at www.broad.mit.edu/gsea/
> For a newbie to GSEA, is there any reason(s) to begin with one or the other?
> Thank you
> -- 
> Loren Engrav, MD
> Univ Washington
> Seattle
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N.
PO Box 19024 Seattle, WA 98109

Location: Arnold Building M2 B169
Phone: (206) 667-2793

More information about the Bioconductor mailing list