I am using a local installation of the NCBI blastall program. i have
been playing around with the various output formats (command line switch
-m).
What program is good for viewing the alignments output by locally
installed blast? The blast output breaks the alignments into blocks of
60 characters and I would like to have all the alignment on a single
line. Is there a blast parameter to use that can set this (line length)?
also, is it better to output a SeqAlign file (-O) and graphically view
the ASN.1 output from that? or XML (-m 9)?
I am using Mac OS X and I have the EMBOSS package installed. I also
have the X11 from apple installed, so if you could direct me to any OS X
native programs (Cocoa or Carbon) or any unix EMBOSS or X11 programs
that would be great.
is there a command line program that can be used to convert the blast
output into a FASTA alignment (or other format) that can be imported in
MacVector or Se-Al for Mac OS X?
Thank-you in advance,
Tom Isenbarger
isenATmolbioDOT.mghDOTharvardDOT.edu
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