MMAPPR2: Mutation Mapping Analysis Pipeline for Pooled RNA-Seq

MMAPPR2 maps mutations resulting from pooled RNA-seq data from the F2 cross of forward genetic screens. Its predecessor is described in a paper published in Genome Research (Hill et al. 2013). MMAPPR2 accepts aligned BAM files as well as a reference genome as input, identifies loci of high sequence disparity between the control and mutant RNA sequences, predicts variant effects using Ensembl's Variant Effect Predictor, and outputs a ranked list of candidate mutations.

Package details

AuthorKyle Johnsen [aut], Nathaniel Jenkins [aut], Jonathon Hill [cre]
Bioconductor views DNASeq PooledScreens RNASeq VariantDetection
MaintainerJonathon Hill <jhill@byu.edu>
LicenseGPL-3
Version1.2.0
URL https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3613585/ https://github.com/kjohnsen/MMAPPR2
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("MMAPPR2")

Try the MMAPPR2 package in your browser

Any scripts or data that you put into this service are public.

MMAPPR2 documentation built on April 29, 2020, 3:30 a.m.