FragGeneScan is an application for finding (fragmented) genes in short reads. It can also be applied to predict prokaryotic genes in incomplete assemblies or complete genomes. 


  • FragGeneScan site on sourceforge
  • Citation: Mina Rho, Haixu Tang, and Yuzhen Ye. FragGeneScan: Predicting Genes in Short and Error-prone Reads. Nucl. Acids Res., 2010 doi: 10.1093/nar/gkq747 


Usage on Bridges


To see what versions of FragGeneScan are available type

module avail fraggenescan

To see what other modules are needed, what commands are available and how to get additional help type

module help  fraggenescan

To use FragGeneScan, include a command like this in your batch script or interactive session to load the FragGeneScan module:

module load fraggenescan

Be sure you also load any other modules needed, as listed by the module help fraggenescan command.