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Issue on page /preprocessing_visualization/quality_control.html #242

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partrita opened this issue Oct 24, 2023 · 0 comments

partrita commented Oct 24, 2023 •

edited

Next, we additionally filter out genes that are not detected in at least 20 cells as these are not informative.

print(f"Total number of genes: {adata.n_vars}")

# Min 20 cells - filters out 0 count genes
sc.pp.filter_genes(adata, min_cells=20)
print(f"Number of genes after cell filter: {adata.n_vars}")

Please provide more explanation regarding the description above. Why the exclusion of the at lease 20 cells filter out is necessary.

Thanks in advance.

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