bento.tl.lp

bento.tl.lp(sdata, instance_key='cell_boundaries', nucleus_key='nucleus_boundaries', groupby='feature_name', num_workers=1, recompute=False)

Predict transcript subcellular localization patterns. Patterns include: cell edge, cytoplasmic, nuclear edge, nuclear, none

Parameters:

• sdata (SpatialData) – Spatial formatted SpatialData object

• groupby (str or list of str) – Key in `sdata.points[points_key] to groupby, by default None. Always treats each cell separately

Returns:

sdata –

.tables[“table”].uns[‘lp’]

Localization pattern indicator matrix.

.tables[“table”].uns[‘lpp’]

Localization pattern probabilities.

Return type:

SpatialData