Files in bhklab/ToxicoGx
Analysis of Large-Scale Toxico-Genomic Data
.Rbuildignore
.github/.gitignore
.github/workflows/R-CMD-check-bioc-release.yml
.github/workflows/R-CMD-check-bioc.yml
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/LogLogisticRegression.R
R/SanityCheck.R
R/ToxicoSet-accessors.R
R/ToxicoSet-class.R
R/allGenerics.R
R/class-signature.R
R/columnsAsCharacter.R
R/computeAUC.R
R/computeDrugSensitivity.R
R/computeIC50.R
R/computeICn.R
R/dataset.R
R/downloadTSet.R
R/drugGeneResponseCurve.R
R/drugPerturbationSig.R
R/drugTimeResponseCurve.R
R/geneDrugPerturbation.R
R/geneDrugSensitivity.R
R/globals.R
R/methods-computeLimmaDiffExpr.R
R/methods-subsetTo.R
R/paramErrorChecker.R
R/paramMissingHandler.R
R/paramMissingHandlerTests.R
R/rankGeneDrugPerturbation.R
R/rankGeneDrugSensitivity.R
R/summarizeMolecularProfiles.R
R/summarizeSensitivityProfiles.R
R/updateObject-methods.R
R/utilities.R
R/zzz.R
README.md
data/HCC_sig.rda
data/TGGATESsmall.rda
inst/CODE_OF_CONDUCT.md
inst/CONTRIBUTING.md
man/HCC_sig.Rd
man/TGGATESsmall.Rd
man/ToxicoSet-accessors.Rd
man/ToxicoSet-class.Rd
man/ToxicoSet.Rd
man/ToxicoSig.Rd
man/availableTSets.Rd
man/checkTSetStructure.Rd
man/computeAUC.Rd
man/computeICn.Rd
man/computeLimmaDiffExpr-ToxicoSet-method.Rd
man/computeLimmaDiffExpr.Rd
man/dim-ToxicoSet-method.Rd
man/downloadTSet.Rd
man/drugGeneResponseCurve.Rd
man/drugPerturbationSig.Rd
man/drugTimeResponseCurve.Rd
man/geneDrugPerturbation.Rd
man/logLogisticRegression.Rd
man/show-ToxicoSet-method.Rd
man/show-ToxicoSig-method.Rd
man/showSigAnnot.Rd
man/sub-ToxicoSet-ANY-ANY-ANY-method.Rd
man/subsetTo.Rd
man/summarizeMolecularProfiles.Rd
man/summarizeSensitivityProfiles.Rd
man/updateObject-ToxicoSet-method.Rd
tests/testthat.R
tests/testthat/annotation.TGGATESsmall.rds
tests/testthat/cellInfo.TGGATESsmall.rds
tests/testthat/cellNames.TGGATESsmall.rds
tests/testthat/curation.TGGATESsmall.rds
tests/testthat/drugInfo.TGGATESsmall.rds
tests/testthat/drugNames.TGGATESsmall.rds
tests/testthat/mDataNames.TGGATESsmall.rds
tests/testthat/name.TGGATESsmall.rds
tests/testthat/pertNumber.TGGATESsmall.rds
tests/testthat/perturbation.TGGATESsmall.rds
tests/testthat/rna.fNames.TGGATESsmall.rds
tests/testthat/rna.featureInfo.TGGATESsmall.rds
tests/testthat/rna.molecularProfiles.TGGATESsmall.rds
tests/testthat/rna.phenoData.TGGATESsmall.rds
tests/testthat/sensNumber.TGGATESsmall.rds
tests/testthat/sensitivitProfiles.TGGATESsmall.rds
tests/testthat/sensitivityInfo.TGGATESsmall.rds
tests/testthat/sensitivityMeasures.TGGATESsmall.rds
tests/testthat/subsetTo.TGGATESsmall.rds
tests/testthat/test-summarizeMolecularProfiles.R
tests/testthat/test-tSetClassAccessorMethods.R
tests/testthat/test-tSetClassAssignmentMethods.R
tests/testthat/test-tSetClassConstructor.R
tests/testthat/test-tSetClassErrorHandling.R
vignettes/CS1_published.png
vignettes/toxicoGxCaseStudies.Rmd
