scglue.data.extract_rank_genes_groups
- scglue.data.extract_rank_genes_groups(adata, groups=None, filter_by='pvals_adj < 0.01', sort_by='scores', ascending=False)[源代码]
Extract result of
scanpy.tl.rank_genes_groups()
in the form of marker gene data frame for specific cell groups- 参数:
adata (
AnnData
) – Input datasetgroups (
typing.Optional
[typing.List
[str
]]) – Target groups for which markers should be extracted, by default extract all groups.filter_by (
str
) – Marker filtering criteria (passed topandas.DataFrame.query()
)sort_by (
str
) – Column used for sorting markersascending (
str
) – Whether to sort in ascending order
- 返回类型:
- 返回:
marker_df – Extracted marker data frame
备注
Markers shared by multiple groups will be assign to the group with highest score.