Pathway-Level Information Extractor (PLIER): a generative model for gene expression data

RColorBrewer
gplots
pheatmap
glmnet
rsvd
qvalue

library(devtools)
install_github("mchikina/PLIER")

Check out the vignette here and you can find avilable pathway dataset by calling the function ListPriors().

Mao, Weiguang, Elena Zaslavsky, Boris M. Hartmann, Stuart C. Sealfon, and Maria Chikina. "Pathway-Level Information ExtractoR (PLIER) for gene expression data." Nature Methods 16, no. 7 (2019): 607.

Please refer to LICENSE for details. If you are interested in using this software for a commercial purpose, please contact the developers.