Australian Fgenesh++ Service

Fgenesh++ is a bioinformatics pipeline for automatic prediction of genes in eukaryotic genomes. It can produce fully automated genome annotations of a quality similar to manual annotation, and is extremely fast compared to some other automated genome annotation pipelines.

It works by: (a) performing ab initio gene prediction; (b) running predicted amino acid sequences of all potential exons through a non redundant protein sequence database; and (c) running a second round of gene prediction with higher scores assigned to exons homologous to known proteins.

In response to requests from our genomics communities, we have licensed Fgenesh++ from Softberry, and made it available for use.

Fgenesh++ is accessible by command-line via Pawsey Supercomputing Research Centre, or through the web-based analysis platform Galaxy Australia - including on Galaxy Australia’s Genome Lab. To meet the current licensing arrangement, access can only be granted for publicly funded researchers based in Australia.

Fgenesh++ has extensive online documentation describing how to use it. See also these summaries from two trial users of the service.