[Bioperl-l] what constitutes a good match?
Mon, 9 Apr 2001 17:54:13 +0800 (PST)
I do apologise first if the question I ask is considered off topic.
I have some contig sequences which I want to match against the ensembl
protein database to see if I have any genes on my sequences. The question
is, when I do a blast against the ensembl.pep DB, what would consitute a
good match? If one was to only use the pscore (eg. 1e-60 for a
relatively good match) to sieve out potential genes on contigs, this would
cause the problem of missing out on fragments of genes with very high
pscores (eg. 0.5-3).
How have pple gotten around this problem? Any ideas on what constitutes a
thanks in advance,