Hi Jean-Paul, You can use BioJava to calculate pairwise alignments between your sequences:
http://biojava.org/wiki/BioJava:CookBook:DP:PairWise2 Andreas On Mon, Apr 20, 2009 at 7:56 AM, JP <j...@javaclass.co.uk> wrote: > Hi there at Biojava, > > I have a number of orthologue protein (sequences) from different species - I > would like to calculate the distance (score) between each of these > (programatically) based on the sequence. > > Can anyone suggest a way to do this (I'd rather use an existing bit of > software than having to reinvent the wheel) ? Surely this software must > exist...(hopefully in biojava). > > Many Thanks > Jean-Paul Ebejer, Malta > _______________________________________________ > Biojava-l mailing list - biojav...@lists.open-bio.org > http://lists.open-bio.org/mailman/listinfo/biojava-l > _______________________________________________ Biojava-l mailing list - Biojava-l@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/biojava-l