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New feature: allow user to collapse R1 and R2 in the same UMI group to separate consensus reads#22

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Qirong-Lin wants to merge 3 commits into
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New feature: allow user to collapse R1 and R2 in the same UMI group to separate consensus reads#22
Qirong-Lin wants to merge 3 commits into
aristoteleo:mainfrom
Qirong-Lin:main

bug fixed: corrected sam flag after R1/R2 UMI collapsing

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