Adaptive Sum of Powered Score Test


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Documentation for package ‘aSPU’ version 1.40

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aSPU Sum of Powered Score (SPU) tests and adaptive SPU (aSPU) test for single trait - SNP set association.
aSPUpath Pathway based Sum of Powered Score tests (SPUpath) and adaptive SPUpath (aSPUpath) test for single trait - pathway association.
aSPUs Sum of Powered Score (SPUs) tests and adaptive SPU (aSPUs) test for single trait - SNP set association with GWAS summary statistics.
aSPUsPath Pathway based Sum of Powered Score tests (SPUsPath) and adaptive SPUpath (aSPUsPath) test for single trait - pathway association with GWAS summary statistics.
aSPUw Inverse variance weighted Sum of Powered Score tests (SPUw) and adaptive SPUw (aSPUw) test for single trait - SNP set association.
estcov estcov
exdat An example data set
GATES2 Gene-based Association Test that uses an extended Simes procedure (GATES) for single trait - SNP set association
GatesSimes GATES-Simes test for single trait - pathway association.
GEEaSPU The SPU and aSPU tests for multiple traits - single SNP association in generalized estimating equations.
getlogitp Get the p-values of the multiple SNPs based on the Wald test in a logistic regresion model.
Hyst HYST (Hybrid Set-based Test) for single trait - pathway association
kegg9 A subset of coronary artery disease (CAD) data
minP minP test.
MTaSPUs The SPU and aSPU tests for multiple traits - single SNP association with GWAS summary statistics.
simPathAR1Snp Simulating a pathway with multiple SNPs.