Genetic analysis package


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Documentation for package `gap' version 1.0-11

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gap-package Genetic analysis package
aldh2 ALDH2 markers and Alcoholism
apoeapoc APOE/APOC1 markers and Schizophrenia
bt Bradley-Terry model for contingency table
ccsize Power and sample size for case-cohort design
cf Cystic Fibrosis data
chow.test Chow's test for heterogeneity in two regressions
comp.score score statistics for testing genetic linkage of quantitative trait
crohn Crohn disease data
fa Friedreich Ataxia data
fbsize Sample size for family-based linkage and association design
fsnps A case-control data involving four SNPs with missing genotype
gap Genetic analysis package
gc.em Gene counting for haplotype analysis
gcontrol genomic control
gcp Permutation tests using GENECOUNTING
genecounting Gene counting for haplotype analysis
gif Kinship coefficient and genetic index of familiality
hap Haplotype reconstruction
hap.em Gene counting for haplotype analysis
hap.score Score statistics for association of traits with haplotypes
hla The HLA data
htr Haplotype trend regression
hwe Hardy-Weinberg equlibrium test for multiallelic marker
hwe.hardy Hardy-Weinberg equilibrium test using MCMC
kbyl LD statistics for two multiallelic loci
kin.morgan kinship matrix for simple pedigree
makeped A function to prepare pedigrees in post-MAKEPED format
mao A study of Parkinson's disease and MAO gene
mia multiple imputation analysis for hap
mtdt Transmission/disequilibrium test of a multiallelic marker
muvar Means and variances under 1- and 2- locus (biallelic) QTL model
nep499 A study of Alzheimer's disease with eight SNPs and APOE
pbsize Power for population-based association design
pedtodot Converting pedigree(s) to dot file(s)
pfc Probability of familial clustering of disease
pfc.sim Probability of familial clustering of disease
pgc Preparing weight for GENECOUNTING
plot.hap.score Plot Haplotype Frequencies versus Haplotype Score Statistics
pm Permutation tests using GENECOUNTING
pmplus Permutation tests using GENECOUNTING
print.hap.score Print a hap.score object
s2k Statistics for 2 by K table
snca A study of Parkinson's disease and SNCA makers
tbyt LD statistics for two SNPs
tscc Power calculation for two-stage case-control design
twinan90 Classic twin models
whscore Whittemore-Halpern scores for allele-sharing