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davismcc / scaterPaperExtras

Discussion board for modifications to the scater paper
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Page 5: Data visualisation: Paragraph 3 #18

Closed LTLA closed 8 years ago

LTLA commented 8 years ago

The various types of reduced-dimension plots can be used to identify potentially problematic cells to filter out of the dataset and to interpret cell population structure.

We're past QC now, and marking cells as low-quality just because they don't fit into nice clusters in the expression space seems to be fraught with danger. Why not just focus on what people mostly use these plots for, i.e.:

The various types of reduced-dimension plots can be used to examine the structure of the cell population, including the formation of distinct subpopulations or the presence of continuous trajectories.

davismcc commented 8 years ago

Good catch - I suspect that was probably an old copy-paste from a QC section. Have applied this change.