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

Research output: Contribution to journalJournal articleResearchpeer-review

Standard

JUCHMME : a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis. / Tamposis, Ioannis A; Tsirigos, Konstantinos D; Theodoropoulou, Margarita C; Kontou, Panagiota I; Tsaousis, Georgios N; Sarantopoulou, Dimitra; Litou, Zoi I; Bagos, Pantelis G.

In: Bioinformatics (Online), Vol. 35, No. 24, 15.12.2019, p. 5309-5312.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Tamposis, IA, Tsirigos, KD, Theodoropoulou, MC, Kontou, PI, Tsaousis, GN, Sarantopoulou, D, Litou, ZI & Bagos, PG 2019, 'JUCHMME: a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis', Bioinformatics (Online), vol. 35, no. 24, pp. 5309-5312. https://doi.org/10.1093/bioinformatics/btz533

APA

Tamposis, I. A., Tsirigos, K. D., Theodoropoulou, M. C., Kontou, P. I., Tsaousis, G. N., Sarantopoulou, D., ... Bagos, P. G. (2019). JUCHMME: a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis. Bioinformatics (Online), 35(24), 5309-5312. https://doi.org/10.1093/bioinformatics/btz533

Vancouver

Tamposis IA, Tsirigos KD, Theodoropoulou MC, Kontou PI, Tsaousis GN, Sarantopoulou D et al. JUCHMME: a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis. Bioinformatics (Online). 2019 Dec 15;35(24):5309-5312. https://doi.org/10.1093/bioinformatics/btz533

Author

Tamposis, Ioannis A ; Tsirigos, Konstantinos D ; Theodoropoulou, Margarita C ; Kontou, Panagiota I ; Tsaousis, Georgios N ; Sarantopoulou, Dimitra ; Litou, Zoi I ; Bagos, Pantelis G. / JUCHMME : a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis. In: Bioinformatics (Online). 2019 ; Vol. 35, No. 24. pp. 5309-5312.

Bibtex

@article{b59aba0251e840289fd1f6e1708d1b49,
title = "JUCHMME: a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis",
abstract = "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.",
author = "Tamposis, {Ioannis A} and Tsirigos, {Konstantinos D} and Theodoropoulou, {Margarita C} and Kontou, {Panagiota I} and Tsaousis, {Georgios N} and Dimitra Sarantopoulou and Litou, {Zoi I} and Bagos, {Pantelis G}",
year = "2019",
month = "12",
day = "15",
doi = "10.1093/bioinformatics/btz533",
language = "English",
volume = "35",
pages = "5309--5312",
journal = "Bioinformatics (Online)",
issn = "1367-4811",
publisher = "Oxford University Press",
number = "24",

}

RIS

TY - JOUR

T1 - JUCHMME

T2 - a Java Utility for Class Hidden Markov Models and Extensions for biological sequence analysis

AU - Tamposis, Ioannis A

AU - Tsirigos, Konstantinos D

AU - Theodoropoulou, Margarita C

AU - Kontou, Panagiota I

AU - Tsaousis, Georgios N

AU - Sarantopoulou, Dimitra

AU - Litou, Zoi I

AU - Bagos, Pantelis G

PY - 2019/12/15

Y1 - 2019/12/15

N2 - 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.

AB - 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.

U2 - 10.1093/bioinformatics/btz533

DO - 10.1093/bioinformatics/btz533

M3 - Journal article

C2 - 31250907

VL - 35

SP - 5309

EP - 5312

JO - Bioinformatics (Online)

JF - Bioinformatics (Online)

SN - 1367-4811

IS - 24

ER -

ID: 238681998