SFDR is a program to compute FDR q-values of genome-wide SNP association analysis within each stratum. Especialy the SFDR program is taylored to directly use genome-wide linkage scan results to assign strata. Weighted FDR q-values can be also computed as an alternative to SFDR. To understand the details of FDR, SFDR and WFDR control methods, see references at the bottom. Also, you can find a breif introduction of the methods in the the program manual document here.
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If you want a Perl interpreter installed, go to http://www.perl.org/get.html. You can download a Perl interpreters for your OS system.
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FDR - Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B. 57, 289-300 (1995)
q-value - Storey, J.D. A direct approach to false discovery rates. J. R. Stat. Soc. B.64, 479-498 (2002)
SFDR - Sun, L., Craiu, R.V., Paterson, A.D. & Bull, S.B. Stratified false discovery control for large-scale hypothesis testing with application to genome-wide association studies. Genet. Epidemiol. 30, 519-530 (2006)
WFDR - Roeder, K., Bacanu, S.A., Wasserman, L. & Devlin, B. Using linkage genome scans to improve power of association in genome scans.Am. J. Hum. Genet. 78, 243-252 (2006)
We are planning to update our program regularly. You are welcome to suggest features that you want us to implement into this program. We greatly appreciate if you could point out any bugs when you use our program to :
Dalla Lana School of Public Health
Department of Statistics
University of Toronto
Phone: (416) 978-7519
E-mail: sun at utstat dot toronto dot edu
Yun Joo Yoo
Samuel Lunenfeld Research Institute
Mount Sinai Hospital, Toronto
Phone: (416) 586-4800 ext 5836
E-amil: yoo at mshri do on dot ca