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

Research output: Contribution to journalJournal articleResearchpeer-review

  • 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.

Original languageEnglish
JournalBioinformatics (Online)
Issue number24
Pages (from-to)5309-5312
Number of pages4
Publication statusPublished - 15 Dec 2019
Externally publishedYes

ID: 238681998