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JonathanShor / DoubletDetection

Doublet detection in single-cell RNA-seq data.
https://doubletdetection.readthedocs.io/en/stable/
MIT License
87 stars 23 forks source link

Doublet estimation with Jurkat cell data #93

Closed joonlee3 closed 6 years ago

joonlee3 commented 6 years ago

Hi,

I have applied DoubletDetection to public and private 10x genomics data from Jurkat cells. The estimated doublet rates are around 20% from both of datasets. Those rates seem to be too high.

Do you have any suggestions or insights on this? Thanks.

Best, Joon

adamgayoso commented 6 years ago

Hi Joon,

The classifier works best when there are several cell types present in the sample. I would recommend not using the classifier on just Jurkat cells.