Record added by Jurg Ott (the original Rockefeller list)
R/Genetic Analysis Package
1.17-39 (July 2010)
This is an integrated package for genetic data analysis of both population and family data. Currently it contains functions for sample size calculations of both population-based and family-based designs, classic twin ACE/ADE/AE/CE models, probability of familial disease aggregation, kinship calculation, some statistics in linkage analysis, and association analysis involving one or more genetic markers including haplotype analysis with or without environmental covariates
with help from Kurt Hornik of the R core
http://www.mrc-epid.cam.ac.uk/~jinghua.zhao/r-progs.htm
R
aldh2, apoeapoc, bt, chow.test, fbsize, fsnps, gc.em, gcontrol, genecounting, gif, hap, hap.em, hap.score, hla, htr, hwe, hwe.hardy, kbyl, kin.morgan, makeped, mia, mtdt, muvar, pbsize, pfc, pgc, s2k, tbyt, whscore
Zhao and Tan (2006), “Integrated analysis of genetic data with R”, Human Genomics, 2(4):258-265.
reference manual (PDF): http://cran.r-project.org/doc/packages/gap.pdf