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HMMER

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… Expand
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Papers overview

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2011
2011
Dynamic programming matrices and the P7Viterbi algorithm of HMMER 3.0 show high parallelism in its code. Within the code, every… Expand
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2010
2010
We propose a new parallelization scheme for the hmmsearch function of the HMMER software, in order to target FPGA technology… Expand
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2009
2009
We present PIO-HMMER, an enhanced version of MPI-HMMER. PIO-HMMER improves on MPI-HMMER's scalability through the use of parallel… Expand
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2009
2009
HMMer is a widely-used bioinformatics software package that uses profile Hidden Markov Models (HMMs) to model the primary… Expand
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2009
2009
HMMer is a widely-used bioinformatics software package that uses profile HMMs (Hidden Markov Models) to model the primary… Expand
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2008
2008
HMMer is a commonly used package for biological sequence database searching with profile hidden Markov model (HMMs). It allows… Expand
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2007
2007
HMMER, based on the profile Hidden Markov Model (HMM) is one of the most widely used sequence database searching tools, allowing… Expand
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2006
2006
Due to the ever-increasing size of sequence databases it has become clear that faster techniques must be employed to effectively… Expand
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2005
2005
The proliferation of biological sequence data has motivated the need for an extremely fast probabilistic sequence search. One… Expand
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1998
1998
Biological sequence analysis using profile hidden Markov models Permission is granted to make and distribute verbatim copies of… Expand
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