[BioC] B value cutoff in LIMMA

[Richard Friedman]

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
advised?

Thanks and best wishes,
Rich
------------------------------------------------------------
Richard A. Friedman, PhD
Associate Research Scientist
Herbert Irving Comprehensive Cancer Center
Oncoinformatics Core
Lecturer
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
http://cancercenter.columbia.edu/~friedman/


"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