├── .Rbuildignore ├── .gitignore ├── CSOmap.R ├── CSOmapR.Rproj ├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── R ├── CSOmapR-package.R ├── RcppExports.R ├── facilitatetSNE.R └── utils.R ├── README.md ├── man ├── CSOmapR-package.Rd ├── calcNormalizedConnection.Rd ├── calc_d_rcpp.Rd ├── getAffinityMat.Rd ├── getContribution.Rd ├── getCoordinates.Rd ├── getDensity3D.Rd ├── getSignificance.Rd ├── optimization.Rd ├── plot3D.Rd ├── runExactTSNE_R.Rd ├── run_tSNE.Rd └── update_grads_rcpp.Rd ├── src ├── .gitignore ├── Makevars ├── Makevars.my ├── RcppExports.cpp ├── Rmytsne.cpp ├── functions.cpp ├── kissrandom.h ├── mytsne.cpp ├── mytsne.h └── time_code.h └── utils └── ref.R /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/lijxug/CSOmapR/HEAD/.Rbuildignore -------------------------------------------------------------------------------- /.gitignore: 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