marcelm/cutadapt — pull request #7 by vittoriozamboni (2014-06-11 13:41:30+00:00)
Title: Added --mask-adapter option that adds 'N' instead of removing adapter

With --mask-adapter option, the read sequence is rebuilt from match information, i.e. with a -b 'CC':
- CCAAAACC removes CC from right
- CCAAAA removes CC from left
--> rebuild from last modification:
- NNAAAA
- NNAAAANN
The quality is set to the original quality.