What the package does (short line)

[Package List] [Top]

Documentation for package `geneTrioData' version 1.0

Help Pages

geneTrioData-package What the package does (short line) ~~ package title ~~
bkRule.2GenoRule add genotypic signalrules info to the original signalRule
ccSampler sample cases and controls from their distributions
geneTrioData What the package does (short line) ~~ package title ~~
genGenoTDTPair generate pesudo control based on the genotypic data from case, two genotypic data from parents
genTDTPesudoControl generate pesudo controls for trio data
getLinkedBk select unique block indexes from a vector of signalRule(s)
getProb obtain the joint probabilities of those haplotype expression for mulitple blocks
hap2genotype.bk generate the map showing all possible genotype data for a haplotype block
hap2genotype.m generate the genotype data in matrixes based on haplotype sequences
linkedBlock reconstruct the updated bkMap, information about selected blocks so that the first part of the map contains only the blocks carrying the signals
regressCondOnSample run LogicReg or clogit on simulated trio genotypic data sets
regressCondOnSampleCC run LogicReg or clogit on simulated case and conttol genotypic data sets
regressCondOnTrio run LogicReg or clogit on TDT data generated using one set of trio genotypic data
sampleFromCondProb sample binary expressions for selected blocks
sampleGenoTDTData generate pesudo control based on the genotypic data from case, two genotypic data from parents
shuffleBkMaps resemble the bkMaps so that the blocks carrying the signals will be put at the beginning.
specifyBks reconstruct the bkMaps so that the blocks carrying the signals will be put at the beginning.
trioProbPrep run a simulation study for trio genotypic data
trioRegOnSample a wrapper for function regressCondOnSample(), run LogicReg or clogit on simulated trio genotypic data sets
trioRegOnTrio a wrapper for function regressCondOnTrio(), run LogicReg or clogit on TDT data generated using one set of trio genotypic data
trioSampler sample case and control from their distributions and resample if a Medalian error occurs
trioSampler4Permu sample case and control (parent) from their distributions and match the case with paretns
updateSignalRules Update the signalRules based on the updated bkMap, the relevant infomation about the selected blocks.