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 (Union[AnnData, MuData]) – AnnData or MuData object

• temp_cols (Union[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.