├── DESCRIPTION ├── NAMESPACE ├── R ├── #aSPUperm.R# ├── GATES2.R ├── GEEaSPU.R ├── GatesSimes.R ├── Hyst.R ├── MTaSPUs.R ├── MTaSPUsSet.R ├── MTaSPUsSetPath.R ├── MTaSPUsSetScore.R ├── aSPU.R ├── aSPUboot.R ├── aSPUboot2.R ├── aSPUd.R ├── aSPUpath.r ├── aSPUpath2.r ├── aSPUperm.R ├── aSPUperm2.R ├── aSPUpermC.R ├── aSPUr.R ├── aSPUs.R ├── aSPUsD.R ├── aSPUsPath.r ├── aSPUsPath2.r ├── aSPUsim1.R ├── aSPUsim2.R ├── aSPUw.R ├── aSPUwboot.R ├── aSPUwperm.R ├── aSPUwsim.R ├── estcov.R ├── getlogitp.R ├── minP.R ├── plotPmat.r ├── pruningSNP.R ├── simPathAR1SNP.R └── util.R ├── README.md ├── data ├── SAMD11.rda ├── exdat.rda ├── kegg9.rda └── someGs.rda ├── inst └── doc │ ├── MTaSPUsSet.html │ └── aSPUstat.html ├── man ├── GATES2.Rd ├── GEEaSPU.Rd ├── GatesSimes.Rd ├── Hyst.Rd ├── MTaSPUs.Rd ├── MTaSPUsSet.Rd ├── MTaSPUsSetPath.Rd ├── MTaSPUsSetScore.Rd ├── SAMD11.Rd ├── aSPU.Rd ├── aSPUd.Rd ├── aSPUpath.Rd ├── aSPUpath2.Rd ├── aSPUr.Rd ├── aSPUs.Rd ├── aSPUsD.Rd ├── aSPUsPath.Rd ├── 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