Thanks for looking at the method! I'll give your improved version a try. subAlignment does return a slice of the Alignment; a horizontal slice. I need a vertical slice at a given location. In other words, subAlignment: if sequence in alignment has symbols at location, return entire sequence get(Vertical)Slice: for sequence in alignment, return subsequence at location
I use slices for primer design, where I have a candidate primer location and want to see the list of different target sequences in the alignment at that position (so I can consider possible mismatches, Tm, etc.) It would also be handy for the GUI, to say, "give me a view of bases 2000-2567 for every sequence in this really long alignment". Thanks, Ed -- View this message in context: http://www.nabble.com/Getting-a-Slice-of-an-Alignment-tf1849222.html#a5066891 Sent from the BioJava forum at Nabble.com. _______________________________________________ Biojava-l mailing list - [email protected] http://lists.open-bio.org/mailman/listinfo/biojava-l
