fbat

Family Based Association Tests for genetic data.

Bioconductor version: Development (2.7)

This package implements a broad class of Family Based Association Tests for genetids data, with adjustments for population admixture using the code from the 'FBAT' software program (see http://www.biostat.harvard.edu/~fbat/fbat.htm). Features include: - Uses data from nuclear families, sibships, pedigrees, or any combination; provides unbiased tests with or without founder genotypes. - Analyzes dichotomous, measured, or time-to-onset traits and multiple traits; trait definition can be optimized. - Offers bi-allelic and multi-allelic tests of association using standard genetic models (additive, dominant, recessive or genotype). - Offers large sample and Monte-Carlo exact tests of the null hypothesis: no linkage and no association; offers large sample test of H0: no association. - Estimates allele frequencies; checks Mendelian consistency. - Tests multiple markers using haplotypes; estimates haplotype frequencies and linkage disequilibrium between pairs of markers. - Offers two multi-marker tests for testing multiple markers simultaneously, without resolving phase or assuming no recombination. - Uses standard pedigree data files; phenotype file is optional. - Offers the Sibs Disequilibrium Test.

Author: Weiliang Qiu Ross Lazarus Gregory Warnes Nitin Jain

Maintainer: The R Genetics Project

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("fbat")    

Documentation

PDF

fbat.pdf

Reference Manual

Details

biocViews	Genetics
Depends	GeneticsBase
Imports	GeneticsBase, MASS, stats, utils
Suggests
System Requirements
License	LGPL
URL
Depends On Me
Imports Me
Suggests Me	GeneticsBase

Package Downloads

Package Source	fbat_1.13.0.tar.gz
Windows Binary	fbat_1.13.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	fbat_1.13.0.tgz
Package Downloads Report	Download Stats