lusystemsbio/NetAct: NetAct R Package

NetAct a computational platform for constructing core transcription-factor regulatory networks using both transcriptomics data and literature-based transcription factor-target databases. NetAct robustly infers the activities of regulators using target expression, constructs networks based on transcriptional activity, and integrates mathematical modeling for validation.

NetAct is licensed under the MIT License https://github.com/lusystemsbio/NetAct/blob/master/LICENSE

Authors:

Kenong Su Kenong.Su@Pennmedicine.upenn.edu,

Vivek Kohar vivek.kohar@gmail.com,

Danya Gordin Danya.Gordin@gmail.com (Main maintainer),

Mingyang Lu mingyang.lu@northeastern.edu

from the Lu lab @ Northeastern University https://lusystemsbio.northeastern.edu/.

Installation:

library(devtools) install_github("lusystemsbio/NetAct", dependencies=T, build_vignettes = T)

Tutorial:

https://htmlpreview.github.io/?https://github.com/lusystemsbio/NetAct/blob/master/vignettes/Tutorial.html

Manual:

https://github.com/lusystemsbio/NetAct/blob/master/vignettes/NetAct_1.0.5.pdf

Reference:

Kenong Su, Ataur Katebi, Vivek Kohar, Benjamin Clauss, Danya Gordin, Zhaohui S. Qin, R. Krishna M. Karuturi, Sheng Li, Mingyang Lu. NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity. bioRxiv 2022.05.06.487898; doi: https://doi.org/10.1101/2022.05.06.487898