TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders

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ID: 291596
2004
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Abstract
Abstract Summary: We describe two new Generalized Hidden Markov Model implementations for ab initio eukaryotic gene prediction. The C/C++ source code for both is available as open source and is highly reusable due to their modular and extensible architectures. Unlike most of the currently available gene-finders, the programs are re-trainable by the end user. They are also re-configurable and include several types of probabilistic submodels which can be independently combined, such as Maximal Dependence Decomposition trees and interpolated Markov models. Both programs have been used at TIGR for the annotation of the Aspergillus fumigatus and Toxoplasma gondii genomes. Availability: Source code and documentation are available under the open source Artistic License from http://www.tigr.org/software/pirate.
Reference Key
openalex_W2121840477 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors William H. Majoros, Mihaela Pertea, Steven L. Salzberg
Journal BMC Bioinformatics
Year 2004
DOI
10.1093/bioinformatics/bth315
URL
https://academic.oup.com/bioinformatics/article-pdf/20/16/2878/48906429/bioinformatics_20_16_2878.pdf
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