├── .Rbuildignore ├── DESCRIPTION ├── NAMESPACE ├── R ├── CCAT.R ├── CompSRana.R ├── DoDiffusionMap.R ├── DoIntegPPI.R ├── DoLandSCENT.R ├── InferLandmark.R ├── InferPotency.R ├── LandSCENT-package.R ├── Plot_CellSR.R ├── Plot_DiffusionMap.R ├── Plot_LandSR.R └── data.R ├── README.md ├── data ├── Example.m.RData ├── SR.v.RData ├── SR4.v.RData ├── net13Jun12.m.RData ├── net17Jan16.m.RData ├── phenoExample.v.RData ├── phenoscChu.v.RData ├── potS.v.RData ├── rawExample.m.RData └── tsne.o.RData ├── inst ├── CITATION └── NEWS.Rd ├── man ├── CCAT.Rd ├── CompSRana.Rd ├── DoDiffusionMap.Rd ├── DoIntegPPI.Rd ├── DoLandSCENT.Rd ├── Example.m.Rd ├── InferLandmark.Rd ├── InferPotency.Rd ├── LandSCENT-package.Rd ├── Plot_CellSR.Rd ├── Plot_DiffusionMap.Rd ├── Plot_LandSR.Rd ├── SR.v.Rd ├── SR4.v.Rd ├── figures │ └── README-pressure-1.png ├── net13Jun12.m.Rd ├── net17Jan16.m.Rd ├── phenoExample.v.Rd ├── phenoscChu.v.Rd ├── potS.v.Rd ├── rawExample.m.Rd └── tsne.o.Rd └── vignettes ├── CellDensitySR.jpg ├── DPT.png ├── LandSCENT.Rmd ├── LandSCENT.bib ├── PotencyComparison.jpg ├── SR.png └── SR_boxplot.jpg /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/.Rbuildignore -------------------------------------------------------------------------------- /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/DESCRIPTION -------------------------------------------------------------------------------- /NAMESPACE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/NAMESPACE -------------------------------------------------------------------------------- /R/CCAT.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/CCAT.R -------------------------------------------------------------------------------- /R/CompSRana.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/CompSRana.R -------------------------------------------------------------------------------- /R/DoDiffusionMap.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/DoDiffusionMap.R -------------------------------------------------------------------------------- /R/DoIntegPPI.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/DoIntegPPI.R -------------------------------------------------------------------------------- /R/DoLandSCENT.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/DoLandSCENT.R -------------------------------------------------------------------------------- /R/InferLandmark.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/InferLandmark.R -------------------------------------------------------------------------------- /R/InferPotency.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/InferPotency.R -------------------------------------------------------------------------------- /R/LandSCENT-package.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/LandSCENT-package.R -------------------------------------------------------------------------------- /R/Plot_CellSR.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/Plot_CellSR.R -------------------------------------------------------------------------------- /R/Plot_DiffusionMap.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/Plot_DiffusionMap.R -------------------------------------------------------------------------------- /R/Plot_LandSR.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/Plot_LandSR.R -------------------------------------------------------------------------------- /R/data.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/R/data.R -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/README.md -------------------------------------------------------------------------------- /data/Example.m.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/Example.m.RData -------------------------------------------------------------------------------- /data/SR.v.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/SR.v.RData -------------------------------------------------------------------------------- /data/SR4.v.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/SR4.v.RData -------------------------------------------------------------------------------- /data/net13Jun12.m.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/net13Jun12.m.RData -------------------------------------------------------------------------------- /data/net17Jan16.m.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/net17Jan16.m.RData -------------------------------------------------------------------------------- /data/phenoExample.v.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/phenoExample.v.RData -------------------------------------------------------------------------------- /data/phenoscChu.v.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/phenoscChu.v.RData -------------------------------------------------------------------------------- /data/potS.v.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/potS.v.RData -------------------------------------------------------------------------------- /data/rawExample.m.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/rawExample.m.RData -------------------------------------------------------------------------------- /data/tsne.o.RData: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/data/tsne.o.RData -------------------------------------------------------------------------------- /inst/CITATION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/inst/CITATION -------------------------------------------------------------------------------- /inst/NEWS.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/inst/NEWS.Rd -------------------------------------------------------------------------------- /man/CCAT.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/CCAT.Rd -------------------------------------------------------------------------------- /man/CompSRana.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/CompSRana.Rd -------------------------------------------------------------------------------- /man/DoDiffusionMap.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/DoDiffusionMap.Rd -------------------------------------------------------------------------------- /man/DoIntegPPI.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/DoIntegPPI.Rd -------------------------------------------------------------------------------- /man/DoLandSCENT.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/DoLandSCENT.Rd -------------------------------------------------------------------------------- /man/Example.m.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/Example.m.Rd -------------------------------------------------------------------------------- /man/InferLandmark.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/InferLandmark.Rd -------------------------------------------------------------------------------- /man/InferPotency.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/InferPotency.Rd -------------------------------------------------------------------------------- /man/LandSCENT-package.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/LandSCENT-package.Rd -------------------------------------------------------------------------------- /man/Plot_CellSR.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/Plot_CellSR.Rd -------------------------------------------------------------------------------- /man/Plot_DiffusionMap.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/Plot_DiffusionMap.Rd -------------------------------------------------------------------------------- /man/Plot_LandSR.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/Plot_LandSR.Rd -------------------------------------------------------------------------------- /man/SR.v.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/SR.v.Rd -------------------------------------------------------------------------------- /man/SR4.v.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/SR4.v.Rd -------------------------------------------------------------------------------- /man/figures/README-pressure-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/figures/README-pressure-1.png -------------------------------------------------------------------------------- /man/net13Jun12.m.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/net13Jun12.m.Rd -------------------------------------------------------------------------------- /man/net17Jan16.m.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/net17Jan16.m.Rd -------------------------------------------------------------------------------- /man/phenoExample.v.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/phenoExample.v.Rd -------------------------------------------------------------------------------- /man/phenoscChu.v.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/phenoscChu.v.Rd -------------------------------------------------------------------------------- /man/potS.v.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/potS.v.Rd -------------------------------------------------------------------------------- /man/rawExample.m.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/rawExample.m.Rd -------------------------------------------------------------------------------- /man/tsne.o.Rd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/man/tsne.o.Rd -------------------------------------------------------------------------------- /vignettes/CellDensitySR.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/CellDensitySR.jpg -------------------------------------------------------------------------------- /vignettes/DPT.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/DPT.png -------------------------------------------------------------------------------- /vignettes/LandSCENT.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/LandSCENT.Rmd -------------------------------------------------------------------------------- /vignettes/LandSCENT.bib: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/LandSCENT.bib -------------------------------------------------------------------------------- /vignettes/PotencyComparison.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/PotencyComparison.jpg -------------------------------------------------------------------------------- /vignettes/SR.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/SR.png -------------------------------------------------------------------------------- /vignettes/SR_boxplot.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/ChenWeiyan/LandSCENT/HEAD/vignettes/SR_boxplot.jpg --------------------------------------------------------------------------------