GeneMark

From UFRC
Jump to navigation Jump to search

Description

From the website: A family of gene prediction programs developed at Georgia Institute of Technology, Atlanta, Georgia, USA.

For bacterial and archaeal gene prediction it's recommended to use a parallel combination of GeneMark-P* and GeneMark.hmm-P with pre-computed models. A novel genome can be analyzed by the self-training program GeneMarkS* (aka GeneMark.hmm-PS).

Metagenomic sequences can be analyzed by the MetaGeneMark program with updated heuristic models.

Required Modules

modules documentation

GeneMark Suite

  • genemark_s

MetaGeneMark

  • metagenemark

System Variables

  • HPC__DIR - installation directory
  • HPC_GENEMARK_DIR - directory under which all genemark applicatoins are located.

Validation

  • Validated 4/5/2018