Detection of disease-associated SNP interactions in case-parent trio data


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Documentation for package ‘trio’ version 1.1.22

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colGxE Genotypic TDT for Gene-Environment Interactions
colMAFtrio Remove SNPs or Trios
colTDT Genotypic TDT
colTDT2way Genotypic TDT for Two-Way Interactions
colTDTinter2way Genotypic TDT for Two-Way Interactions
colTDTmaxStat Maximum Genotypic TDT
colTDTmaxTest Maximum Genotypic TDT
compPermTDT2way Permutation-Based gTDT for Two-Way Interactions
findLDblocks Identifying LD blocks
freq.hap Case-Parent Trio Data
getLD Computation of LD Measures
LDdata Case-Parent Trio Data
mat Computation of LD Measures
mat.test Case-Parent Trio Data
orderSNPs Remove SNPs or Trios
ped2geno Transformation of Ped-File
plot.getLD Plotting a getLD Object
plot.LDblocks Plotting a LDblock Object
print.colGxE Genotypic TDT for Gene-Environment Interactions
print.colTDT Genotypic TDT
print.colTDTepi Genotypic TDT for Two-Way Interactions
print.LDblock Identifying LD blocks
print.maxStatTrio Maximum Genotypic TDT
print.maxTestTrio Maximum Genotypic TDT
print.tdt Genotypic TDT
print.tdtEpi Genotypic TDT for Two-Way Interactions
read.pedfile Reading a Ped File
removeSNPs Remove SNPs or Trios
removeTrios Remove SNPs or Trios
simuBkMap Case-Parent Trio Data
splitBlocks Identifying LD blocks
step3way Case-Parent Trio Data
tdt Genotypic TDT
tdt2way Genotypic TDT for Two-Way Interactions
trio Generate Trio Data Format Suitable for Trio Logic Regression
trio.check Check Case-Parent Trio Data for Mendelian Errors
trio.data Case-Parent Trio Data
trio.gen.err Case-Parent Trio Data
trio.gen1 Case-Parent Trio Data
trio.gen2 Case-Parent Trio Data
trio.ped.err Case-Parent Trio Data
trio.ped1 Case-Parent Trio Data
trio.ped2 Case-Parent Trio Data
trio.permTest Permutation Tests for Trio Logic Regression
trio.sim Simulate Case-Parent Trios