compbiomed/ASSIGN: Adaptive Signature Selection and InteGratioN (ASSIGN)

ASSIGN is a computational tool to evaluate the pathway deregulation/activation status in individual patient samples. ASSIGN employs a flexible Bayesian factor analysis approach that adapts predetermined pathway signatures derived either from knowledge-based literature or from perturbation experiments to the cell-/tissue-specific pathway signatures. The deregulation/activation level of each context-specific pathway is quantified to a score, which represents the extent to which a patient sample encompasses the pathway deregulation/activation signature.

Getting started

Package details

AuthorYing Shen, Andrea H. Bild, W. Evan Johnson, and Mumtehena Rahman
Bioconductor views Bayesian GeneExpression Pathways Software
MaintainerYing Shen <yshen3@bu.edu>, W. Evan Johnson <wej@bu.edu>, David Jenkins <dfj@bu.edu>, Mumtehena Rahman <moom.rahman@utah.edu>
LicenseMIT + file LICENSE
Version1.25.0
URL https://compbiomed.github.io/ASSIGN/
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("compbiomed/ASSIGN")
compbiomed/ASSIGN documentation built on May 12, 2020, 4:13 a.m.