TILPRED with automatic CD8 T cell pre-filtering

Before computing CD8 T cell states probabilities, this new version of TILPRED will automatically detect non CD8 T cell types. Non CD8 T cells are further classified based on curated gene signature enrichment into: Treg (Foxp3 Regulatory T cells), CD4T (non Treg CD4+ T cells), NKT (NK T cells), Tcell_unknown (T cells of other kinds) and Non-Tcell (for cell types other than T cells, e.g. Myeloid, B cells, NKs).

Currently, TILPRED only classifies CD8 TILs from mice. TILPRED using parameter human=T will only classify cell types from tumor samples into: pureTcells (T cells), TcellDoublet (contaminated T cells), NK and nonTcell (NK, macrophages, CAF, epithelial, endothelial, malignant cells, etc.).

v0.1.1

This release incorporated a few parameters to control the behaviour of predictTilState() function (nCores and cellCycleThresold) and the GPL-3.0 licence.