vitkl / SLIMFinderR

Tools for systematic search for short linear motifs (SLIMs) using SLIMSuite and protein interaction data in R

Installation

# Install R SLIMFinderR package
install.packages("BiocManager") # for installing BioConductor dependencies
BiocManager::install("vitkl/SLIMFinderR", dependencies = T)

SLiMFinderR::PPInetwork2SLIMFinder wraps the motif discovery pipeline. Read the help page and the comments in code to find out the exact steps (https://github.com/vitkl/SLIMFinderR/blob/master/R/PPInetwork2SLIMFinder.R).