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Overview of FAST

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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 (Huang et. al. PLoS Genet, 7(7):e1002177, Jul 2011)
(2) Bimbam (Servin et. al. PLoS Genet, 3(7):e114, Jul 2007)
(3) Vegas (Liu et. al. Am J Hum Genet, 87(1):139–145, Jul 2010)
(4) MinSNP (Huang et. al. PLoS Genet, 7(7):e1002177, Jul 2011)
(5) MinSNP-Gene (Huang et. al. PLoS Genet, 7(7):e1002177, Jul 2011)
(6) Gates (Am J Hum Genet, 88(3):283–293, Mar 2011)
(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.

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Installation

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Program Options

Input File Format

Output File Format

Combined Analysis

Examples