Uniquely mapped reads - Githubissues

DaehwanKimLab / hisat2

Graph-based alignment (Hierarchical Graph FM index)

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Open JunxiFeng opened 2 years ago

JunxiFeng commented 2 years ago

Hello,

Could you explain how reads are considered as uniquely mapped or not? I noticed that it's defined differently in every aligner.

Thanks a lot!