quantiseqr

This is the development version of quantiseqr; for the stable release version, see quantiseqr.

Quantification of the Tumor Immune contexture from RNA-seq data

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DOI: 10.18129/B9.bioc.quantiseqr

Bioconductor version: Development (3.23)

This package provides a streamlined workflow for the quanTIseq method, developed to perform the quantification of the Tumor Immune contexture from RNA-seq data. The quantification is performed against the TIL10 signature (dissecting the contributions of ten immune cell types), carefully crafted from a collection of human RNA-seq samples. The TIL10 signature has been extensively validated using simulated, flow cytometry, and immunohistochemistry data.

Author: Federico Marini [aut, cre] ORCID iD ORCID: 0000-0003-3252-7758 , Francesca Finotello [aut] ORCID iD ORCID: 0000-0003-0712-4658

Maintainer: Federico Marini <marinif at uni-mainz.de>

Citation (from within R, enter citation("quantiseqr")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("quantiseqr")

For older versions of R, please refer to the appropriate Bioconductor release.