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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, and to perform sequence alignments. It detects homology by comparing a profile-HMM (a Hidden Markov model constructed explicitly for a particular search) 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 u

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  • HMMER é um e pacote de software livre comumente usado para escrito por . Seu uso geral é identificar sequências homólogas de proteínas ou nucleotídeos, e executar alinhamentos de sequência. Ele detecta homologia comparando um perfil HMM para uma única sequência ou um banco de dados de sequências. Sequências que marcam significativamente melhor para o perfil HMM em comparação com um modelo nulo são considerados homólogos às sequências utilizadas para construir o perfil HMM. Perfis HMMs são construídos de um alinhamento múltiplo de sequências no pacote HMMER usando o programa hmmbuild (um “construtor” para HMM). A implementação de perfil HMM usada no software HMMER foi baseada no trabalho de Krogh e colegas. HMMER é um console utilitário portado para todos os principais sistemas operacionai
  • 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, and to perform sequence alignments. It detects homology by comparing a profile-HMM (a Hidden Markov model constructed explicitly for a particular search) 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 u
  • HMMER és un paquet de programari lliure utilitzat per a l'anàlisi de seqüències creat per Sean Eddy. El seu ús general és la identificació de seqüències homòlogues de proteïnes o nucleòtids. La cerca es basa en la comparació de perfils HMM contra una seqüència o base de dades de seqüències. Els perfils HMM es construeixen a partir d'un alineament múltiple de seqüències mitjançant el programa hmmbuild dins el paquet HMMER. La implementació del perfil HMM utilitzada a HMMER es basa en el treball de Krogh i coautors. HMMER és compatible amb els principals sistemes operatius, incloent diferents versions de Linux, Windows i Mac OS. HMMER és l'eina principal en què es basen bases de dades com Pfam i InterPro.
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