Has anyone written something that fills out a sequence from the consensus
sequence found in the .ace files of phred/phrap?
If not, I will be writing one, I was thinking of doing something like being
able to do
BufferedReader reader = new BufferedReader( new FileReader(phredFile));
SequenceIterator si = SeqIOTools.readPhred(reader);
Sequence sequence = si.getConsensusSequence();
Don't really need a sequence iterator I suppose, there is only one consensus
in the file, though there are all the sample sequences in the file. And I
don't want to add a method to the sequence iterator either. SO perhaps some
sort of sequencebuilder child or factory method? Anyway, please advise...
-Mat
_______________________________________________
Biojava-l mailing list - [EMAIL PROTECTED]
http://biojava.org/mailman/listinfo/biojava-l
