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JUCHMME: a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis

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  • Ioannis A Tamposis
  • Tsirigos, Konstantinos
  • Margarita C Theodoropoulou
  • Panagiota I Kontou
  • Georgios N Tsaousis
  • Dimitra Sarantopoulou
  • Zoi I Litou
  • Pantelis G Bagos

SUMMARY: JUCHMME is an open-source software package designed to fit arbitrary custom Hidden Markov Models (HMMs) with a discrete alphabet of symbols. We incorporate a large collection of standard algorithms for HMMs as well as a number of extensions and evaluate the software on various biological problems. Importantly, the JUCHMME toolkit includes several additional features that allow for easy building and evaluation of custom HMMs, which could be a useful resource for the research community.

AVAILABILITY AND IMPLEMENTATION: http://www.compgen.org/tools/juchmme, https://github.com/pbagos/juchmme.

SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

OriginalsprogEngelsk
TidsskriftBioinformatics (Online)
Vol/bind35
Udgave nummer24
Sider (fra-til)5309-5312
Antal sider4
ISSN1367-4811
DOI
StatusUdgivet - 15 dec. 2019
Eksternt udgivetJa

ID: 238681998