bmannakee/mapexr: Sensitive and Specific Filtering of Genetic Variants in Xenograft and Primary Tumors
Version 0.1.0

This package is an implementation of the **MAPEX** algorithm described in `Mannakee et al. ...`. The algorithm is a post-variant-calling filter for variants that uses **BLASTN** to determine the fraction of reads supporting a variant call that align best to the site of the variant. It is intended to be used to filter spurious variant calls resulting from mouse DNA contamination in patient-derived xenograft(PDX) tumors, and to evaluate supporting reads for potential paralog risk in primary tumors.

Getting started

Package details

Maintainer
LicenseMIT
Version0.1.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("bmannakee/mapexr")
bmannakee/mapexr documentation built on March 21, 2018, 1:26 p.m.