scirpy.get.obs_context

scirpy.get.obs_context(data, temp_cols)

Contextmanager that temporarily adds columns to obs.

Example

with ir.get.obs_context(mdata, {
    "new_col_with_constant_value": "foo",
    "new_col_with_sequence": range(len(mdata)),
    "v_gene_primary_vj_chain": ir.get.airr(mdata, "v_call", "VJ_1")
}) as m:
    ir.pl.group_abundance(m, groupby="v_gene_primary_vj_chain", target_col="new_col_with_constant_value")

Parameters

data : AnnData | MuDataUnion[AnnData, MuData]

AnnData or MuData object

temp_cols : DataFrame | MappingUnion[DataFrame, Mapping[str, Any]]

Dictionary where keys are column names and values are columns. Columns will be added to obs using pandas.DataFrame.assign(). It is also possible to pass a DataFrame in which case the columns of the DataFrame will be added to obs and matched based on the index.