dear all:
i found a problem trimLRPatterns cannot allow this situation
that is the Rpattern has a left shift from subject sequence, see below
subject
ATCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAATATT
Rpattern
AATCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTG
so i change the code to keep the 5' barcode GCATT, so the pattern can be
recognized
subject
GCATTATCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTGAAAAAAAAAAAATATT
Rpattern
AATCGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTG
after remove 3' adaptor, i can remove the 5' barcode
any ideas?
shan gao
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