[BioC] How many tests do you need to moderate the t-statistic in Limma

[Belinda Phipson]

Hi Richard

The lower limit for the number of tests you need to produce a moderated
t-statistic with limma is 2. I would definitely recommend using limma to
borrow power over 200 tests, as you would certainly need to apply a multiple
testing correction for that many tests, and a moderated t statistic will
have more power and fewer false discoveries than an ordinary t statistic.

Cheers,
Belinda

-----Original Message-----
From: bioconductor-bounces at r-project.org
[mailto:bioconductor-bounces at r-project.org] On Behalf Of Richard Friedman
Sent: Friday, 15 June 2012 2:40 AM
To: Bioconductor mailing list
Subject: [BioC] How many tests do you need to moderate the t-statistic in
Limma

Dear List,

	Is there a lower limit for the number of tests you need to produce a

moderated t-statistic with Limma?
I am now analyzing a peptide array which after filtering has about 200  
present spots. Can Limma
be applied to borrow power over only 200 tests? Should it be applied  
to this situation?

Thanks and best wishes,
Rich
------------------------------------------------------------
Richard A. Friedman, PhD
Associate Research Scientist,
Biomedical Informatics Shared Resource
Herbert Irving Comprehensive Cancer Center (HICCC)
Lecturer,
Department of Biomedical Informatics (DBMI)
Educational Coordinator,
Center for Computational Biology and Bioinformatics (C2B2)/
National Center for Multiscale Analysis of Genomic Networks (MAGNet)
Room 824
Irving Cancer Research Center
Columbia University
1130 St. Nicholas Ave
New York, NY 10032
(212)851-4765 (voice)
friedman at cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/

"School is an evil plot to suppress my individuality"

Rose Friedman, age15

_______________________________________________
Bioconductor mailing list
Bioconductor at r-project.org
https://stat.ethz.ch/mailman/listinfo/bioconductor
Search the archives:
http://news.gmane.org/gmane.science.biology.informatics.conductor


______________________________________________________________________
The information in this email is confidential and intend...{{dropped:4}}