riboHMM statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Translated ORF prediction chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

riboHMM specifications

Information


Unique identifier OMICS_20318
Name riboHMM
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Download


Versioning


Add your version

Documentation


Maintainers


  • person_outline Jothan K. Pritchard <>
  • person_outline Anil Raj <>
  • person_outline Sidney Wang <>
  • person_outline Yoav Gilad <>

Publication for riboHMM

riboHMM in publications

 (2)
PMCID: 5701008
PMID: 29170441
DOI: 10.1038/s41467-017-01981-8

[…] frame (fig. ). to evaluate the performance of ribo-tish in predicting orfs from rribo-seq data, we performed an roc analysis for ribo-tish and four other published methods: ribotaper; orf-rater; ribohmm; and riborf using a published rribo-seq data set (methods). like ribo-tish, ribotaper, orf-rater, and ribohmm can predict orfs from rribo-seq data without user-specified orf candidates. […]

PMCID: 5314775
PMID: 27923997
DOI: 10.1093/nar/gkw1190

[…] stand alone tools were developed for differential gene expression analysis (anota (), babel (), ribodiff (), xtail ()), and for the prediction of translated orfs (ribotaper (), orf-rator () and ribohmm ()). ribomap () estimates footprint origins in the presence of multiple splice isoforms and repetitive regions and rfoot () uses riboseq data to predict non-ribosome protected rna sites. […]


To access a full list of publications, you will need to upgrade to our premium service.

riboHMM institution(s)
Department of Genetics, Stanford University, Stanford, CA, USA; Department of Human Genetics, University of Chicago, Chicago, MA, USA; Department of Biology, Stanford University, Stanford, CA, USA; Department of Statistics, University of Chicago, Chicago, MA, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA, USA
riboHMM funding source(s)
Supported by the National Institutes of Health (grant reference number HG007036), the National Institutes of Health (grant reference number MH084703), the National Institutes of Health (grant reference number HG02585).

riboHMM reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review riboHMM