gtx: Genetics ToolboX

Assorted tools for genetic association analyses. The current focus is on implementing (either exactly or approximately) regression analyses using summary statistics instead of using subject-specific data. So far, functions exist to support multi-SNP risk score analyses, multi-SNP conditional regression analyses, and multi-phenotype analyses, using summary statistics. There are helper functions for reading and manipulating subject-specific genotype data, which provide a platform for calculating the summary statistics, or for using R to conduct other analyses not supported by specific GWAS analysis tools.

Version: 0.0.8
Depends: R (≥ 2.4.0), survival
Published: 2013-01-11
Author: Toby Johnson
Maintainer: Toby Johnson <Toby.x.Johnson at gsk.com>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
Materials: ChangeLog
CRAN checks: gtx results

Downloads:

Reference manual: gtx.pdf
Vignettes: Efficient Calculation for Multi-SNP Genetic Risk Scores
Package source: gtx_0.0.8.tar.gz
MacOS X binary: gtx_0.0.8.tgz
Windows binary: gtx_0.0.8.zip
Old sources: gtx archive