netgsa-package: Network-Based Gene Set Analysis
In drjingma/netgsa: Network-Based Gene Set Analysis

Description Details Author(s) References See Also

The netgsa-package provides functions for carrying out Network-based Gene Set Analysis by incorporating external information about interactions among genes, as well as novel interactions learned from data.

Package:	netgsa
Type:	Package
Version:	3.1.0
Date:	2019-03-12
License:	GPL (>=2)

Ali Shojaie <ashojaie@uw.edu> and Jing Ma <jingma@fredhutch.org>

Ma, J., Shojaie, A. & Michailidis, G. (2016) Network-based pathway enrichment analysis with incomplete network information. Bioinformatics 32(20):165–3174. https://doi.org/10.1093/bioinformatics/btw410

Shojaie, A., & Michailidis, G. (2010a). Penalized likelihood methods for estimation of sparse high-dimensional directed acyclic graphs. Biometrika 97(3), 519-538. http://biomet.oxfordjournals.org/content/97/3/519.short

Shojaie, A., & Michailidis, G. (2010b). Network enrichment analysis in complex experiments. Statistical applications in genetics and molecular biology, 9(1), Article 22. http://www.ncbi.nlm.nih.gov/pubmed/20597848.

Shojaie, A., & Michailidis, G. (2009). Analysis of gene sets based on the underlying regulatory network. Journal of Computational Biology, 16(3), 407-426. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3131840/

glmnet

drjingma/netgsa documentation built on Feb. 22, 2022, 5:18 p.m.