nRex: Germline & Somatic single-nucleotide variant calling
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README.md

nRex

nRex is a germline & somatic single-nucleotide variant calling method.

Installing nRex

git clone --recursive https://github.com/tobiasrausch/nRex.git

cd nRex/

make all

Build BED file with chromosomes and exonic regions for QC

cd R/ && Rscript exon.R

Running nRex

./src/nRex.sh <hg19.wgs|hg19.wes|hg19.haloplex> <genome.fa> <output prefix> <sample1.read1.fq.gz> <sample1.read2.fq.gz>