How to interpret highly variable genes plot in Scanpy?
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Entering edit mode
21 months ago
Pratik ▴ 840

Hey ya'll,

How do I interpret this plot in the Scanpy Tutorial https://scanpy-tutorials.readthedocs.io/en/latest/pbmc3k.html:

sc.pp.highly_variable_genes(adata, min_mean=0.0125, max_mean=3, min_disp=0.5)

extracting highly variable genes
    finished (0:00:00)
--> added
    'highly_variable', boolean vector (adata.var)
    'means', float vector (adata.var)
    'dispersions', float vector (adata.var)
    'dispersions_norm', float vector (adata.var)

enter image description here I understand that the algorithm is identifying highly variable genes, but I don't quite understand what the y-axis means by

dispersions of genes

Any help would be appreciated!

python single-cell RNA Seq • 887 views
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