Matches in DBpedia 2015-10 for { <http://dbpedia.org/resource/HMMER> ?p ?o }
- HMMER abstract "HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. Its general usage is to identify homologous protein or nucleotide sequences. It does this by comparing a profile-HMM to either a single sequence or a database of sequences. Sequences that score significantly better to the profile-HMM compared to a null model are considered to be homologous to the sequences that were used to construct the profile-HMM. Profile-HMMs are constructed from a multiple sequence alignment in the HMMER package using the hmmbuild program. The profile-HMM implementation used in the HMMER software was based on the work of Krogh and colleagues. HMMER is a console utility ported to every major operating system, including different versions of Linux, Windows, and Mac OS.HMMER is the core utility that protein family databases such as Pfam and InterPro are based upon. Some other bioinformatics tools such as UGENE also use HMMER.HMMER3 is complete rewrite of the earlier HMMER2 package, with the aim of improving the speed of profile-HMM searches. The main performance gain is due to a heuristic filter that finds high-scoring un-gapped matches within database sequences to a query profile. This heuristic results in a computation time comparable to BLAST with little impact on accuracy. Further gains in performance are due to a log-likelihood model that requires no calibration for estimating E-values, and allows the more accurate forward scores to be used for computing the significance of a homologous sequence.HMMER3 also makes extensive use of vector instructions for increasing computational speed. This work is based upon earlier publication showing a significant acceleration of the Smith-Waterman algorithm for aligning two sequences.".
- HMMER developer Sean_Eddy.
- HMMER genre Bioinformatics.
- HMMER language English_language.
- HMMER latestPreviewVersion "3.1b1".
- HMMER latestReleaseDate "2010-03-28".
- HMMER latestReleaseVersion "3.0".
- HMMER license GNU_General_Public_License.
- HMMER programmingLanguage C_(programming_language).
- HMMER wikiPageExternalLink hmmer.janelia.org.
- HMMER wikiPageExternalLink hmmer.org.
- HMMER wikiPageExternalLink metameme.sdsc.edu.
- HMMER wikiPageExternalLink ?p=127.
- HMMER wikiPageExternalLink ?p=6.
- HMMER wikiPageExternalLink www.blocks.fhcrc.org.
- HMMER wikiPageExternalLink sam.html.
- HMMER wikiPageExternalLink Wise2.
- HMMER wikiPageExternalLink pftools.
- HMMER wikiPageExternalLink psi1.html.
- HMMER wikiPageExternalLink hmmer_on_tesla.html.
- HMMER wikiPageExternalLink decypherhmm.
- HMMER wikiPageID "19535600".
- HMMER wikiPageLength "5162".
- HMMER wikiPageOutDegree "36".
- HMMER wikiPageRevisionID "663270361".
- HMMER wikiPageWikiLink BLAST.
- HMMER wikiPageWikiLink Bioinformatics.
- HMMER wikiPageWikiLink C_(programming_language).
- HMMER wikiPageWikiLink Category:Bioinformatics.
- HMMER wikiPageWikiLink Category:Bioinformatics_software.
- HMMER wikiPageWikiLink Category:Computational_science.
- HMMER wikiPageWikiLink Category:Free_science_software.
- HMMER wikiPageWikiLink Category:Free_software_programmed_in_C.
- HMMER wikiPageWikiLink Command-line_interface.
- HMMER wikiPageWikiLink Command_line_interface.
- HMMER wikiPageWikiLink English_language.
- HMMER wikiPageWikiLink Forward_algorithm.
- HMMER wikiPageWikiLink Free_software.
- HMMER wikiPageWikiLink GNU_General_Public_License.
- HMMER wikiPageWikiLink Heuristic_(computer_science).
- HMMER wikiPageWikiLink Heuristic_algorithm.
- HMMER wikiPageWikiLink Hidden_Markov_model.
- HMMER wikiPageWikiLink Homology_(biology).
- HMMER wikiPageWikiLink InterPro.
- HMMER wikiPageWikiLink Likelihood-ratio_test.
- HMMER wikiPageWikiLink Linux.
- HMMER wikiPageWikiLink List_of_sequence_alignment_software.
- HMMER wikiPageWikiLink Mac_OS.
- HMMER wikiPageWikiLink Microsoft_Windows.
- HMMER wikiPageWikiLink Multiple_sequence_alignment.
- HMMER wikiPageWikiLink Nucleotide.
- HMMER wikiPageWikiLink Operating_system.
- HMMER wikiPageWikiLink P-value.
- HMMER wikiPageWikiLink Pfam.
- HMMER wikiPageWikiLink Protein.
- HMMER wikiPageWikiLink SIMD.
- HMMER wikiPageWikiLink Sean_Eddy.
- HMMER wikiPageWikiLink Sequence_alignment_software.
- HMMER wikiPageWikiLink Smith-Waterman_algorithm.
- HMMER wikiPageWikiLink Smith–Waterman_algorithm.
- HMMER wikiPageWikiLink UGENE.
- HMMER wikiPageWikiLinkText "HMMER Genetic Research".
- HMMER wikiPageWikiLinkText "HMMER".
- HMMER wikiPageWikiLinkText "HMMER2".
- HMMER wikiPageWikiLinkText "HMMER3".
- HMMER developer "Sean Eddy".
- HMMER genre "Bioinformatics tool".
- HMMER hasPhotoCollection HMMER.
- HMMER language English_language.
- HMMER latestPreviewVersion "3.1".
- HMMER latestReleaseDate "2010-03-28".
- HMMER latestReleaseVersion "3".
- HMMER license GNU_General_Public_License.
- HMMER name "HMMER".
- HMMER programmingLanguage C_(programming_language).
- HMMER wikiPageUsesTemplate Template:Infobox_Software.
- HMMER wikiPageUsesTemplate Template:Official_website.
- HMMER wikiPageUsesTemplate Template:Reflist.
- HMMER subject Category:Bioinformatics.
- HMMER subject Category:Bioinformatics_software.
- HMMER subject Category:Computational_science.
- HMMER subject Category:Free_science_software.
- HMMER subject Category:Free_software_programmed_in_C.
- HMMER type Area.
- HMMER type Software.
- HMMER type Work.
- HMMER type Area.
- HMMER type Biostatistic.
- HMMER type CreativeWork.
- HMMER type Thing.
- HMMER type Q386724.
- HMMER type Q7397.
- HMMER comment "HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. Its general usage is to identify homologous protein or nucleotide sequences. It does this by comparing a profile-HMM to either a single sequence or a database of sequences. Sequences that score significantly better to the profile-HMM compared to a null model are considered to be homologous to the sequences that were used to construct the profile-HMM.".
- HMMER label "HMMER".
- HMMER sameAs HMMER.
- HMMER sameAs m.04n5g57.
- HMMER sameAs Q5631078.
- HMMER sameAs Q5631078.
- HMMER wasDerivedFrom HMMER?oldid=663270361.
- HMMER homepage hmmer.janelia.org.