Files in compbiomed/TBSignatureProfiler
Profile RNA-Seq Data Using TB Pathway Signatures
.Rbuildignore
.gitignore
.travis.yml
CODE_OF_CONDUCT.md
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
NEWS.md
R/OriginalModel.R
R/TBSPapp.R
R/addTBsignature.R
R/bootstrap.R
R/data.R
R/evaluate.R
R/plot.R
R/profile.R
README.md
data/COVIDsignatures.rda
data/OriginalTrainingData.rda
data/TB_hiv.rda
data/TB_indian.rda
data/TBcommon.rda
data/TBsignatures.rda
data/TBsignaturesSplit.rda
data/common_sigAnnotData.rda
data/sigAnnotData.rda
index.md
inst/CITATION
inst/WORDLIST
inst/shiny/app.R
inst/shiny/server/server_auc.R
inst/shiny/server/server_profiler.R
inst/shiny/server/server_upload.R
inst/shiny/server/server_visualization.R
inst/shiny/ui/ui_auc.R
inst/shiny/ui/ui_profiler.R
inst/shiny/ui/ui_upload.R
inst/shiny/ui/ui_visualization.R
man/Bootstrap_LOOCV_LR_AUC.Rd
man/COVIDsignatures.Rd
man/LOOAUC_simple_multiple_noplot_one_df.Rd
man/ObtainSampleScore_OriginalModel.Rd
man/OriginalTrainingData.Rd
man/SignatureQuantitative.Rd
man/SulimanOriginalModel.Rd
man/TBSPapp.Rd
man/TB_hiv.Rd
man/TB_indian.Rd
man/TBcommon.Rd
man/TBsignatures.Rd
man/TBsignaturesSplit.Rd
man/addTBsignature.Rd
man/bootstrapAUC.Rd
man/common_sigAnnotData.Rd
man/compareAlgs.Rd
man/compareBoxplots.Rd
man/cv_glmnet_OriginalModel.Rd
man/deseq2_norm_rle.Rd
man/distinctColors.Rd
man/dot-OriginalModel_NoRetraining.Rd
man/dot-OriginalModel_Retraining.Rd
man/evaluateOriginalModel.Rd
man/knn_OriginalModel.Rd
man/lda_OriginalModel.Rd
man/mkAssay.Rd
man/plotQuantitative.Rd
man/randomForest_OriginalModel.Rd
man/ref_combat_impute.Rd
man/runTBsigProfiler.Rd
man/sigAnnotData.Rd
man/signatureBoxplot.Rd
man/signatureGeneHeatmap.Rd
man/signatureHeatmap.Rd
man/signatureROCplot.Rd
man/signatureROCplot_CI.Rd
man/subsetGeneSet.Rd
man/svm_OriginalModel.Rd
man/tableAUC.Rd
pkgdown/_pkgdown.yml
tests/packagecoverage.R
tests/spelling.R
tests/testthat.R
tests/testthat/test-OriginalModel.R
tests/testthat/test-addTBsignature.R
tests/testthat/test-bootstrap.R
tests/testthat/test-evaluate.R
tests/testthat/test-plot.R
tests/testthat/test-profile.R
vignettes/rmd/OriginalModelTutorial.Rmd
vignettes/rmd/SignatureAddition.Rmd
vignettes/rmd/TBSig_Vignette.Rmd
vignettes/rmd/shinytutorial.Rmd
vignettes/tbspVignette.Rmd
