How to interpret ScanPy scatter plots for QC filtering?

0

Hey ya'll,

I'm working on a scRNA-seq project using publicly available data in ScanPy. I am stuck on, I guess, a QC step of filtering out cells. These scatter plots were generated.

scatter plot

I'm having trouble interpreting why there's two bunches of cells in the bottom graph? Especially the bottom bunch with low n_gene_by_counts and higher total_count? Anyone have a clue or idea what they could be? or how to look into them further? Help, please?

Could someone explain how to interpret these graphs, please?


Python


jupyter-lab


ScanPy


RNA-Seq


scRNA-seq

• 79 views



Source link