├── .github └── workflows │ └── check-bioc.yml ├── .gitignore ├── DESCRIPTION ├── NAMESPACE ├── NEWS.md ├── R ├── generatNullGeneric.R ├── multiScoreGeneric.R ├── permuTest.R ├── plot.R ├── plotRankDensityGeneric.R ├── rankAndScoring.R ├── rankGenesGeneric.R ├── simpleScoreGeneric.R ├── singscore.R ├── stableGenes.R └── sysdata.rda ├── README.md ├── _pkgdown.yml ├── data ├── scoredf_ccle_epi.rda ├── scoredf_ccle_mes.rda ├── scoredf_tcga_epi.rda ├── scoredf_tcga_mes.rda ├── tgfb_expr_10_se.rda ├── tgfb_gs_dn.rda ├── tgfb_gs_up.rda ├── toy_expr_se.rda ├── toy_gs_dn.rda └── toy_gs_up.rda ├── inst ├── CITATION └── REFERENCES.bib ├── man ├── figures │ └── logo.png ├── generateNull.Rd ├── generateNull_intl.Rd ├── getPvals.Rd ├── getStableGenes.Rd ├── multiScore.Rd ├── plotDispersion.Rd ├── plotNull.Rd ├── plotRankDensity.Rd ├── plotRankDensity_intl.Rd ├── plotScoreLandscape.Rd ├── projectScoreLandscape.Rd ├── rankGenes.Rd ├── scoredf_ccle_epi.Rd ├── scoredf_ccle_mes.Rd ├── scoredf_tcga_epi.Rd ├── scoredf_tcga_mes.Rd ├── simpleScore.Rd ├── singscore.Rd ├── tgfb_expr_10_se.Rd ├── tgfb_gs_dn.Rd ├── tgfb_gs_up.Rd ├── toy_expr_se.Rd ├── toy_gs_dn.Rd └── toy_gs_up.Rd ├── tests ├── testthat.R └── testthat │ ├── test-generateNull.R │ ├── test-getPvals.R │ ├── test-getStableGenes.R │ ├── test-multiSingscore.R │ ├── test-plotDis.R │ ├── test-plotRankDens.R │ ├── test-plotScoreLandscape.R │ ├── test-projectScoreLandscape.R │ ├── test-rank.R │ └── test-scoring.R └── vignettes └── singscore.Rmd /.github/workflows/check-bioc.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/DavisLaboratory/singscore/HEAD/.github/workflows/check-bioc.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/DavisLaboratory/singscore/HEAD/.gitignore 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