Hi, I am trying to read in an alignment, and get a count of frequencies of symbols in columns of the alignment. My problem is that biojava seems to not recognize two gap symbols as being equal, so each time I come across a gap symbol my (probably naive!) implementation puts a new gap symbol in my HashMap, rather than incrementing the overall gap symbol count. Is it possible to set things up so that two gap symbols are equal? I realize that this is probably not the right thing to do for other applications.
Thanks a lot, Lachlan _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
