nhmmer: DNA homology search with profile HMMs

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ID: 302675
2013
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Abstract
Abstract Summary: Sequence database searches are an essential part of molecular biology, providing information about the function and evolutionary history of proteins, RNA molecules and DNA sequence elements. We present a tool for DNA/DNA sequence comparison that is built on the HMMER framework, which applies probabilistic inference methods based on hidden Markov models to the problem of homology search. This tool, called nhmmer, enables improved detection of remote DNA homologs, and has been used in combination with Dfam and RepeatMasker to improve annotation of transposable elements in the human genome. Availability: nhmmer is a part of the new HMMER3.1 release. Source code and documentation can be downloaded from http://hmmer.org. HMMER3.1 is freely licensed under the GNU GPLv3 and should be portable to any POSIX-compliant operating system, including Linux and Mac OS/X. Contact: wheelert@janelia.hhmi.org
Reference Key
openalex_W2154775341 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Travis J. Wheeler, Sean R. Eddy
Journal BMC Bioinformatics
Year 2013
DOI
10.1093/bioinformatics/btt403
URL
https://doi.org/10.1093/bioinformatics/btt403
Keywords Keywords not found

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