[BioC] B value cutoff in LIMMA

Richard Friedman friedman at cancercenter.columbia.edu
Fri Apr 7 21:22:45 CEST 2006

Dear Bioconductor List,

	In an earlier posting, Gordon Smyth recommended
a tentative cutoff of B>=0 for Limma output.
Is it okay to publish Venn diagrams based on this
cutoff or should the cutoff be validated by spot-checking with PCR?
Is it okay to publish pathway overrepresentation
analyses with this cutoff, or is PCR validation of the cutoff

Thanks and best wishes,
Richard A. Friedman, PhD
Associate Research Scientist
Herbert Irving Comprehensive Cancer Center
Oncoinformatics Core
Department of Biomedical Informatics
Box 95, Room 130BB or P&S 1-420C
Columbia University Medical Center
630 W. 168th St.
New York, NY 10032
(212)305-6901 (5-6901) (voice)
friedman at cancercenter.columbia.edu

"Cartesian duelism is when somebody told Decartes that he didn't think
therefore he was, and Descartes challenged him to a duel".
-Isaac Friedman, age 16

More information about the Bioconductor mailing list