PEAR - Paired-End reAd mergeR

Owned by Indy Siva
Last updated: Jun 27, 2016
1 min read

Introduction

PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger. It is fully parallelized and can run with as low as just a few kilobytes of memory.

PEAR evaluates all possible paired-end read overlaps and without requiring the target fragment size as input. In addition, it implements a statistical test for minimizing false-positive results. Together with a highly optimized implementation, it can merge millions of paired end reads within a couple of minutes on a standard desktop computer.

Usage

module load bioinformatics/pear/pear

 

 

Installation

module load library/zlib/1.2.8

cd /sw/bioinformatics/pear
cd PEAR
./autogen.sh
./configure --prefix=/sw/bioinformatics/pear  --disable-zlib  2>&1 | tee configureLog.txt
make 2>&1 | tee makeLog.txt
make install 2>&1 | tee makeInstallLog.txt

 

Reference

  1. http://sco.h-its.org/exelixis/web/software/pear/doc.html