[BioC] Sequence alignment for DNA sequences

[fhong at salk.edu]

Hi list,

I am wondering whether there is a package which can do sequence alignment
for DNA sequences. I know package pairseqsim, which is applied to amino
acid sequence. And I believe it is fairly simple to change it so that it
will apply to nucleotide sequence, have anybody done that? Can I ask for
some code?

Thank you very much.
Fangxin



--------------------
Fangxin Hong  Ph.D.
Plant Biology Laboratory
The Salk Institute
10010 N. Torrey Pines Rd.
La Jolla, CA 92037
E-mail: fhong at salk.edu
(Phone): 858-453-4100 ext 1105