hui-sheen/MetaGSCA: Meta-analysis of Gene Set differential Co-expression Analysis

MetaGSCA systematically assesses the coexpression disturbance of a gene set by pooling the results from individual studies. A nonparametric approach named GSNCA (Rahmatallah 2014, Bioinformatics) is used to test whether the gene set is differentially co-expresssed between the two conditions, and a permutation test p-value is computed. Bootstrapping is used to construct confidence intervals of p-values. Meta-analysis is offered through two options: random-intercept logistic regression model and the inverse variance method. Lastly, a pathway crosstalk network is delineated based on the meta-analysis result outputted from the prior steps.

Getting started

Package details

Bioconductor views DifferentialExpression Software StatisticalMethod
Maintainer
LicenseGPL (>= 2)
Version0.99.6
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("hui-sheen/MetaGSCA")
hui-sheen/MetaGSCA documentation built on April 9, 2022, 7:24 p.m.