MIMP_V2

An updated version of MIMP which extends its usage to additional linear motifs beyond phosphorylation sites.

Installation

Clone this repository to your local environment and run the following in R:

install.packages("path/to/MIMP_V2/rmimp", repos=NULL, type="source", INSTALL_opts="--no-staged-install")

Load the library

library(rmimp)

Sample run for ELM motifs (including central residues, and no restriction on central residues):

mimp(muts = system.file("extdata", "sample_muts.tab", package = "rmimp"),
     seqs = system.file("extdata", "sample_seqs.fa", package = "rmimp"),
     model.data = system.file("extdata", "elm.mimp", package = "rmimp"),
     include.cent = TRUE,
     valid_cent_res = '*')