m-HMM statistics

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m-HMM specifications


Unique identifier OMICS_03711
Name m-HMM
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Heng Wang <>

Publication for m-HMM

m-HMM in publications

PMCID: 5248510
PMID: 28127411
DOI: 10.1186/s12263-016-0550-2

[…] (min. ~350 nucleotides) with robust enrichment differences as well as intermediate (min. ~500 nucleotides) and large regions (min. ~1400 nucleotides), three hmm algorithms were applied (s-hmm, m-hmm, and l-hmm). the following cutoffs were used: s-hmm (min. probes: 5, detection states: −5,5, ignore state: 0, max. probability: 0.99, genomic decay: 10000, sigma: 2), m-hmm (min. probes: 10, […]

PMCID: 4979109
PMID: 27507015
DOI: 10.1186/s12864-016-2883-z

[…] thuringiensis nomenclature database []. this new model identified cry genes in 13 isolates (additional file : table s3), including the same 4 isolates that were positive for cry with the enterotoxin_m hmm search. these 13 isolates represented b. thuringiensis (10/14 reference genomes), b. weihenstephanensis (1 reference genome), and two dairy-associated b. cereus group isolates. all genomes […]

PMCID: 4507710
PMID: 26091395
DOI: 10.3390/s150614298

[…] calculation of the location of mobile terminals (mts) in unfamiliar indoor environments. in order to improve the hidden markov model (hmm), we propose two modified algorithms, namely, modified hmm (m-hmm) and replacement modified hmm (rm-hmm). further, a hybrid localization algorithm that combines hmm with an interacting multiple model (imm) is proposed to represent the velocity of mobile […]

PMCID: 2515339
PMID: 18698372
DOI: 10.1371/journal.pone.0002834

[…] 350 nucleotides with strongly enriched/depleted regions (s-hmm), as well as longer and overall less enriched/depleted genomic regions with minimum 15 probes and approximately 500 nucleotides (m-hmm), and 40 probes or approximately 1400 nucleotides (l-hmm). this analysis resulted in identification of 828 s-hmm, 763 m-hmm, and 582 l-hmm in u2os cells (), and 641 s-hmm, 529 m-hmm, and 407 […]

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m-HMM institution(s)
Lyman Briggs College, Michigan State University, East Lansing, MI, USA; Department of Statistics and Probability, Michigan State University, East Lansing, MI, USA; Department of Animal Science, Michigan State University, East Lansing, MI, USA; Department of Statistics, Iowa State University, Ames, IA, USA; Genome Technology Branch, The National Human Genome Research Institute, NIH, Bethesda, MD, USA
m-HMM funding source(s)
Supported by the National Science Foundation under Grant No. 1027527.

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