fbat

Family Based Association Tests for genetic data.

Bioconductor version: 2.5

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 <stwxq at channing.harvard.edu> Ross Lazarus <ross.lazarus at channing.harvard.edu> Gregory Warnes <warnes at bst.rochester.edu> Nitin Jain <nitin.jain at pfizer.com>

Maintainer: The R Genetics Project <r-genetics-talk at lists.sourceforge.net>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("fbat")

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