SNAP 2016

Introduction

SNAP, which stands for Scalable Nucleotide Alignment Program is a fast and accurate read aligner for high-throughput sequencing data. This SNAP version is not to be confused with the other version of SNAP, namely the Semi-HMM-based Nucleic Acid Parser which you can find here.

Installed Version

These versions are installed and and currently available on environment hpc-env/6.4:

SNAP/1.0beta.23-foss-2017b
SNAP-HMM/2013-11-29-GCCcore-6.4.0

Using SNAP

SNAP is installed at the environment hpc-env/6.4 which is to be loaded at first in order to load the SNAP module:

module load hpc-env/6.4
module load SNAP

or
module load hpc-env/6.4
module load SNAP-HMM

Now you can proceed according to the scheme snap-aligner <command>

Documentation

For further information please consult the developer's website where you can find a quick start guide as well as a user manual. Please note that the commands displayed there may not be transferable one-to-one. In such cases, replace the 'snap' command with 'snap-aligner'.