automated QC report - Githubissues

Nanostring-Biostats / InSituType

An R package for performing cell typing in SMI and other single cell data

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automated QC report #210

Open patrickjdanaher opened 3 months ago

patrickjdanaher commented 3 months ago

It would be nice to automate the standard QC plots. A single function could ingest cluster assignments, loglikelihoods, raw counts, umap coordinates, and xy positions, then output:

cell types atop a umap (all in one plot, and faceted to highlight each cell type in turn)
cell types in space (all at once and faceted)
a good marker gene heatmap
a tall profiles heatmap where all genes are visible
the flightpath plot

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