[BioC] Nonorthogonal multiple comparisons in Limma/ Books on Bayesian Statistics

[Richard Friedman]

Fellow  Expressionists,

	Does Limma automatically perform a multiple
comparison adjustment for non-orthogonal contrasts?

	If not, can you recommend another program that can
be used in conjunction with Limma to do this?

	Also, I find the Bayesian theory in the paper
by Gordon Smyth ("Linear Models and Empirical
Bayes Methods..." tough going) Can anyone
please recommend a book or books on Bayesian methods
that can bridge the gap between basic statistics texts
(e.g. Hoel, "An Introduction to Mathematical Statistics" and
Zar "Biostatistical Analysis" and this article)?

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/

In Memoriam, Francis Crick