Hard-coded duplicate removal

[plantformatics]

Duplicate removal prior to peak calling makes perfect sense when calling peaks on tissue-level ATAC-seq experiments. However, single-cell experiments can retain identical fragments derived from different cells. Thus, I am curious if future releases will be sensitive to this characteristic of single cell ATAC-seq data?

[EvanTarbell]

That is an excellent point! I will release a new version where duplicate removal is no longer hard-coded and is instead an option settable at runtime.

[plantformatics]

That would be fantastic! Thanks for the quick response.

[EvanTarbell]

Version 1.2.6 should take care of this issue now. Thanks

[hmyh1202]

nice ！