Probalign: multiple sequence alignment using partition function posterior probabilities
نویسندگان
چکیده
منابع مشابه
Probalign: multiple sequence alignment using partition function posterior probabilities
MOTIVATION The maximum expected accuracy optimization criterion for multiple sequence alignment uses pairwise posterior probabilities of residues to align sequences. The partition function methodology is one way of estimating these probabilities. Here, we combine these two ideas for the first time to construct maximal expected accuracy sequence alignments. RESULTS We bridge the two techniques...
متن کاملSequence Analysis Probalign: Multiple sequence alignment using partition function posterior probabilities
Motivation: The maximum expected accuracy optimization criterion for multiple sequence alignment uses pairwise posterior probabilities of residues to align sequences. The partition function methodology is one way of estimating these probabilities. Here, we combine these two ideas for the first time to construct maximal expected accuracy sequence alignments. Results: We bridge the two techniques...
متن کاملMultiple sequence alignment using Probcons and Probalign.
Sequence alignment remains a fundamental task in bioinformatics. The literature contains programs that employ a host of exact and heuristic strategies available in computer science. Probcons was the first program to construct maximum expected accuracy sequence alignments with hidden Markov models and at the time of its publication achieved the highest accuracies on standard protein multiple ali...
متن کاملMSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities
MOTIVATION Multiple sequence alignment is of central importance to bioinformatics and computational biology. Although a large number of algorithms for computing a multiple sequence alignment have been designed, the efficient computation of highly accurate multiple alignments is still a challenge. RESULTS We present MSAProbs, a new and practical multiple alignment algorithm for protein sequenc...
متن کاملeProbalign: generation and manipulation of multiple sequence alignments using partition function posterior probabilities
Probalign computes maximal expected accuracy multiple sequence alignments from partition function posterior probabilities. To date, Probalign is among the very best scoring methods on the BAliBASE, HOMSTRAD and OXBENCH benchmarks. Here, we introduce eProbalign, which is an online implementation of the approach. Moreover, the eProbalign web server doubles as an online platform for post-alignment...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2006
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btl472