Files in CRI-iAtlas/ImmuneSubtypeClassifier
An R package for classification of immune subtypes, in cancer, using gene expression data.
.Rbuildignore
.gitignore
.idea/modules.xml
DESCRIPTION
ImmuneSubtypeClassifier.Rproj
NAMESPACE
R/callSubtypes.R
R/dataProc.R
R/fitModels.R
R/modelPerf.R
README.md
classifier_training.rmd
data/ebpp_gene.rda
data/ensemble_model.rda
data/geneSetSymbols.rda
data/modelgenes.rda
data/subtype_caller_model.rda
inst/TODO.txt
inst/algorithm_details.txt
inst/data/comparative_immuneSigs_geneLists4.rda
inst/data/five_signature_mclust_ensemble_results.tsv.gz
inst/how_the_model_was_fit.Rmd
inst/important_features_in_the_ensemble_model.tsv
inst/models/ensemble_model_full.rda
inst/models/ensemble_model_sig_genes.rda
license.txt
man/breakBin.Rd
man/callEnsemble.Rd
man/callOneSubtype.Rd
man/callSubtypes.Rd
man/createPairsFeatures.Rd
man/cvFitOneModel.Rd
man/dataProc.Rd
man/featureSelection.Rd
man/fitEnsembleModel.Rd
man/fitOneModel.Rd
man/fitSubtypeModel.Rd
man/geneMatch.Rd
man/geneMatchErrorReport.Rd
man/importantFeatures.Rd
man/modelPerf.Rd
man/modelPerf2.Rd
man/parCallEnsemble.Rd
man/subtypePerf.Rd
man/testFun.Rd
man/trainDataProc.Rd
test/model_unpacking.R
test/test_xena.R
test/train_and_test.R
test/train_and_test_all_subtypes.R
test/train_and_test_ensemble.R
test/train_and_test_ensemble_gene_pairs.R
test/train_and_test_ensemble_signatures.R
test/train_and_test_one_subtype.R
test/training_caller.R
test/xena_calls.R
test/xena_calls_v2.R
test/xena_data_merge.R
test/xena_kallisto_setup.R
test/xena_rsem_fpkm_setup.R
