Category
Generic
Usage
pslPretty in.psl target.lst query.lst pretty.out
Manual
This tool is part of UCSC Genome Browser's utilities.
options:
-axt - save in something like Scott Schwartz's axt format
Note gaps in both sequences are still allowed in the
output which not all axt readers will expect
-dot=N Put out a dot every N records
-long - Don't abbreviate long inserts
-check=fileName - Output alignment checks to filename
It's a really good idea if the psl file is sorted by target
if it contains multiple targets. Otherwise this will be
very very slow.The target and query lists can either be
fasta, 2bit or nib files, or a list of fasta, 2bit and/or nib files
one per line
Share your experience or ask a question