Package index • DeepCC

Functional spectra

preprocessGeneList(): Preprocess Gene List
calcEnrichmentScore(): Calculate Enrichment Score
getFunctionalSpectra(): Generate Functional Spectra
getFunctionalSpectrum(): Generate Functional Spectrum
get_msigdbr(): Get current MSigDB gene sets
get_gene_sets(): Get Gene Sets

Deep learning

train_DeepCC_model(): Train DeepCC Model
save_DeepCC_model(): Save DeepCC Model
load_DeepCC_model(): Load DeepCC Model
get_DeepCC_label(): Get DeepCC Labels
get_DeepCC_prob(): Get DeepCC Prob Matrix
get_DeepCC_features(): Get DeepCC Features

Utilities

cross_validation(): Cross Validation of DeepCC Model
vis_samples(): Visualization of samples

Data

MSigDB: Bundled MSigDB gene set cache