FGENESB: Bacterial Operon and Gene Prediction
Reference: V. Solovyev, A Salamov (2011) Automatic Annotation of Microbial Genomes and Metagenomic Sequences. In Metagenomics and its Applications in Agriculture, Biomedicine and Environmental Studies (Ed. R.W. Li), Nova Science Publishers, p. 61-78
FGENESB is a suite of bacterial operon and gene prediction programs: its detailed description is given here. Presented on this page is gene finding portion of FGENESB, which is pattern/Markov chain-based and is the fastest (E.coli genome is annotated in appr. 14 sec) and most accurate ab initio bacterial gene prediction program available - for more details, see FGENESB help. FGENESB uses genome-specific parameters learned by FgenesB-train script, which requires only DNA sequence from genome of interest as an input. It automatically creates a file with gene prediction parameters for analyzed genome. It took only a few minutes to create such file for E.coli genome using its sequence. If you need parameters for your new bacteria, please contact Softberry - we can include them in the web list.
Annotation portion of FGENESB consumes a lot computer resources and is therefore not available at our web site.
Last modification date: 24 Sep 2013
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