GeneBridge: An R repository from Bioinformatics and Systems Biology Laboratory - Bioinformatics and Systems Biology Laboratory

GeneBridge: Rooting Orthologous Genes in Large-Scale Evolutionary Analysis.

GeneBridge is an R package designed to assess the evolutionary history of genes across diverse species. It implements the Bridge algorithm to infer the evolutionary root of genes in a given species tree. By rooting orthologous genes in large-scale evolutionary snalysis, GeneBridge can provide a framework for exploring evolutionary roots within biological systems.

Installation in R (>=4.3)

Install dependencies to build the package's vignettes

install.packages("knitr")
install.packages("rmarkdown")
install.packages("BiocManager")
BiocManager::install("BiocStyle")

Install the GeneBridge package

install.packages("remotes")
remotes::install_github("sysbiolab/GeneBridge", build_vignettes=TRUE)

Examples

Follow the GeneBridge vignette and try to make some plots!

library(GeneBridge)
vignette("GeneBridge")

Licenses

The GeneBridge package is distributed under Artistic-2.0