Fast Association Tests (FAST)

Overview of FAST Links
This page describes in details the various input/output options and input/output files for FAST. FAST is an
application for efficiently running several gene based analysis methods simultaneously and efficiently on the same data set. The following methods are implemented using both linear regression (for quantitative traits) and logistic regression
(for dichotomous traits):(1) GWiS (PLoS Genet. 2011 Jul;7(7):e1002177. doi: 10.1371/journal.pgen.1002177. Epub 2011 Jul 28.)
(2) Bimbam (PLoS Genet. 2007 Jul;3(7):e114. Epub 2007 May 30.)
(3) Vegas (Am J Hum Genet. 2010 Jul 9;87(1):139-45. doi: 10.1016/j.ajhg.2010.06.009.)
(4) MinSNP (PLoS Genet. 2011 Jul;7(7):e1002177. doi: 10.1371/journal.pgen.1002177. Epub 2011 Jul 28.)
(5) MinSNP-Gene (PLoS Genet. 2011 Jul;7(7):e1002177. doi: 10.1371/journal.pgen.1002177. Epub 2011 Jul 28.)
(6) Gates (Am J Hum Genet. 2011 March 11; 88(3): 283–293. doi: 10.1016/j.ajhg.2011.01.019)
(7) Single SNP Regression.
(8) All the above methods using summary data (single snp regression coefficients and standard errors).

For ease of analysis of genome-wide data, a single chromosome can be run at a time so that all chromosomes can be
run in parallel in a computer cluster. If you need to run specific chromosomal regions, see FAQ

Contact : pchanda2@jhmi.edu

Download FASTInstallation

QuickStart

Program Options

Input File Format

Output File Format

Merging Results of the Methods

Examples

Reference haplotypes from 1000G

FAQ

 

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