Gmap

Description

gmap website  

GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, and GSNAP: Genomic Short-read Nucleotide Alignment Program

Required Modules

modules documentation

Serial

• gmap

System Variables

• HPC_{{#uppercase:gmap}}_DIR - installation directory
• HPC_GMAP_BIN - executable directory.

How To Run

The default shared Genome Database location is /project/bio/gmap. If you are a part of a group that's using a large Genome Database you're welcome to put the shared data into the shared Genome Database location. This is, of course, not necessary for custom databases that can be passed to the gmap with "-D" and "-d" command line switches.