MOTIVATION: BLAST users frequently expect to obtain homologous genes with certain similarity to their query genes. But what they get from BLAST searches are often collections of local alignments called high-scoring segment pairs (HSPs). On the other hand, most homology-based gene finders have been built using computation-intensive algorithms, without taking full advantage of BLAST searches that have been perfected over the last decades. RESULTS: Here we report an efficient algorithm, genBlastG that directly uses the HSPs reported by BLAST to define high-quality gene models. AVAILABILITY: http://genome.sfu.ca/genblast/download.html
MOTIVATION: BLAST users frequently expect to obtain homologous genes with certain similarity to their query genes. But what they get from BLAST searches are often collections of local alignments called high-scoring segment pairs (HSPs). On the other hand, most homology-based gene finders have been built using computation-intensive algorithms, without taking full advantage of BLAST searches that have been perfected over the last decades. RESULTS: Here we report an efficient algorithm, genBlastG that directly uses the HSPs reported by BLAST to define high-quality gene models. AVAILABILITY: http://genome.sfu.ca/genblast/download.html
Authors: Timothy B Yates; Kai Feng; Jin Zhang; Vasanth Singan; Sara S Jawdy; Priya Ranjan; Paul E Abraham; Kerrie Barry; Anna Lipzen; Chongle Pan; Jeremy Schmutz; Jin-Gui Chen; Gerald A Tuskan; Wellington Muchero Journal: Genome Biol Evol Date: 2021-09-01 Impact factor: 3.416
Authors: Kevin Howe; Paul Davis; Michael Paulini; Mary Ann Tuli; Gary Williams; Karen Yook; Richard Durbin; Paul Kersey; Paul W Sternberg Journal: Worm Date: 2012-01-01