SNAP-HMM 2016

Introduction

SNAP-HMM is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes. SNAP is an acroynm for Semi-HMM-based Nucleic Acid Parser.

Installed Version

Although the program is actually only called SNAP, it was installed with the suffix '-HMM' to distinguish it from the other SNAP version. You can find both version by typing in

module spider snap

The following versions of SNAP-HMM are installed and currently available...

... on environment hpc-env/8.3:

• SNAP-HMM/20190603-GCC-8.3.0

... on environment hpc-env/6.4:

• SNAP-HMM/2013-11-29-GCCcore-6.4.0

To load the desired version of the module, use the module load command, e.g.

module load hpc-env/8.3
module load SNAP-HMM

Using SNAP-HMM

To work with the data included in SNAP-HMM, you shold use the environment variable $EBROOTSNAPMINHMM which leads to the softwares' directory:

You can proceed according to the scheme snap <command>

Eg.:

snap $EBROOTSNAPMINHMM/HMM/thale $EBROOTSNAPMINHMM/DNA/thale.dna.gz
snap $EBROOTSNAPMINHMM/HMM/worm $EBROOTSNAPMINHMM/DNA/worm.dna.gz

Documentation

For further information consult the readme file or visit the developer's website.