flexgsea is a R package to do gene set enrichment analysis [1]. Main advantages:
The package is not yet on CRAN. You can install from Github:
# install.packages("devtools")
devtools::install_github("NKI-CCB/flexgsea-r")
Main documentation is on the flexgsea
function in the package:
help('flexgsea', 'flexgsea')
This package was called ggsea before.
[1] Subramanian, Aravind, Pablo Tamayo, Vamsi K. Mootha, Sayan Mukherjee, Benjamin L. Ebert, Michael A. Gillette, Amanda Paulovich, et al. 2005. "Gene Set Enrichment Analysis: A Knowledge-Based Approach for Interpreting Genome-Wide Expression Profiles." Proceedings of the National Academy of Sciences of the United States of America 102 (43): 15545–50. doi:10.1073/pnas.0506580102.
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