lute param class, method, and generic definitions for the DeconRNAseq deconvolution algorithm. See ?deconrnaseqParam-class for more information.
Install this package from GitHub using:
devtools::install_github("metamaden/deconrnaseqParam")
This param class requires the DeconRNASeq software to run (available from Bioconductor).
A YML file has been included to set up a conda environment to run the main dependencies ./inst/yml/deconrnaseq.yml.
Racle, Julien, and David Gfeller. 2020. “EPIC: A Tool to Estimate the Proportions of Different Cell Types from Bulk Gene Expression Data.” In Bioinformatics for Cancer Immunotherapy: Methods and Protocols, edited by Sebastian Boegel, 233–48. Methods in Molecular Biology. New York, NY: Springer US. https://doi.org/10.1007/978-1-0716-0327-7_17.