Introduction

Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform. Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and conducting population genomics and phylogeography.

Usage

On Giffith HPC cluster:

module load stacks/2.60

On Gowonda cluster:

module load stacks/1.48

Installation

On Giffith HPC cluster:

module load gcc/9.2.0
cd /sw/stacks/2.60/src/stacks-2.60/
./configure --prefix=/sw/stacks/2.60  2> &1 | tee log.configureLogs.txt
make -j8 2>&1 | tee log.makej8.txt
make install 2>&1 | tee log.make_install_stacks.txt

On Gowonda cluster:

module load gcc/7.1.0
module load library/zlib/1.2.11
 ./configure --prefix=/sw/stacks/1.48 2>&1 | tee ConfigLog.txt
make 2>&1 | tee makeLog.txt
 make install 2>&1 | tee makeInstallLog.txt

Griffith HPC Cluster Documentation

stacks

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Introduction

Usage

Installation

Reference

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