theislab / sfaira_tutorials

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update function names in tutorials #7

Open Rubbert opened 3 months ago

Rubbert commented 3 months ago

e.g. I encountered:

for k, ds in dsg.datasets.items():
    ds.streamline_features(
        remove_gene_version=True,
        match_to_release={"Homo sapiens": "104", "Mus musculus": "104"},
        subset_genes_to_type="protein_coding"
    )
    ds.streamline_metadata(
        schema="sfaira", clean_obs=True, clean_var=True, clean_uns=True, clean_obs_names=True
    )

Which should be(?)

    ds.streamline_var(
        remove_gene_version=True,
        match_to_release={"Homo sapiens": "104", "Mus musculus": "104"},#, },
        subset_genes_to_type="protein_coding"
    )
    ds.streamline_obs_uns(
        schema="sfaira", clean_obs=True, clean_var=True, clean_uns=True, clean_obs_names=True
    )