Simon,
Thanks. The "--samout" option works great. I can see each read with its assignment to a feature with the tag ‘XF’. My next question is how do I extract reads with no_feature, ambiguous, and alignment_not_unique from the rest of the mapped reads?
Thanks.
Tilahun
Thanks. The "--samout" option works great. I can see each read with its assignment to a feature with the tag ‘XF’. My next question is how do I extract reads with no_feature, ambiguous, and alignment_not_unique from the rest of the mapped reads?
Thanks.
Tilahun
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