Family Based Association Tests for genetic data.


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Documentation for package ‘fbat’ version 1.12.0

Help Pages

checkMarkers Basic data quality checks for markers
checkMarkers.default Basic data quality checks for markers
checkMendelian Check Mendelian Errors
checkMendelian.default Check Mendelian Errors
fbat Family-Based Association Tests
fbat.default Family-Based Association Tests
getFounders Get founders' information
missGFreq Count frequencies of missing genotypes
missGFreq.default Count frequencies of missing genotypes
pedAFreq get allele frequencies
pedAFreq.default get allele frequencies
pedFlagHomo flag homo/heterozygotes
pedFlagHomo.default flag homo/heterozygotes
pedGFreq get genotype frequencies
pedGFreq.default get genotype frequencies
pedHardyWeinberg Test Hardy-Weinberg equilibrium for each marker based on parental data
pedHardyWeinberg.default Test Hardy-Weinberg equilibrium for each marker based on parental data
readHapMap Import HapMap data
readLink Import file with PLINK data format
readPed Import pedigree file from standard pedigree file format
sampleInfoCEU Information about HapMap CEU subjects
sampleInfoCHB Information about HapMap CHB subjects
sampleInfoJPT Information about HapMap JPT subjects
sampleInfoYRI Information about HapMap YRI subjects
summaryPvalue summarize the test statistics and p-values
viewFlagHomo flag homo/heterozygotes for specified marker
viewHW View allele frequencies, Hardy-Weinberg equilibrium test statistics for specified marker
viewstat view statistics for a marker