ti_quant_sim1700mixtures: quanTIseq output for the simulation data of 1700 mixtures for...

In federicomarini/quantiseqr: Quantification of the Tumor Immune contexture from RNA-seq data

quanTIseq output for the simulation data of 1700 mixtures for RNA-seq data

Description

quanTIseq output for the simulation data of 1700 mixtures for RNA-seq data

Details

quanTIseq output for the simulation data of 1700 mixtures for RNA-seq data, stored as a data.frame with 1700 rows (all the single instances of the different mixtures) as returned by run_quantiseq(). Column names, accordingly, contain the names of the component of the TIL10 signature, namely "B.cells", "Macrophages.M1", "Macrophages.M2", "Monocytes", "Neutrophils", "NK.cells", "T.cells.CD4", "T.cells.CD8", "Tregs", "Dendritic.cells", and "Other" (indicating for example a proxy for the amount of tumor tissue).

This can be compared (see Vignette for an example) to the ground truth information on the components of the mixtures.

References

Finotello, F., Mayer, C., Plattner, C. et al. Correction to: Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data. Genome Med 11, 50 (2019). https://doi.org/10.1186/s13073-019-0655-5

federicomarini/quantiseqr documentation built on Dec. 20, 2024, 2:39 a.m.