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Add option to show CDR3 AA translation for export alignments #192
This proposed patch adds an option to show the CDR3 AA translation above the NT sequence in ExportAlignmentsPretty. We've found this useful when looking at many reads. I'm open to implementation suggestions - one weakness of this approach is that it only seems to report AA if we have full-length CDR3. I'm extracting this using:
NSequenceWithQuality cdr3NT = vdjcObject.getFeature(GeneFeature.CDR3);
and it's possible another route would also give us a result for partial overlaps.