scSLAT.viz.multi_dataset.match_3D_multi_error

class scSLAT.viz.multi_dataset.match_3D_multi_error(dataset_A, dataset_B, matching, mode='high_true', highlight_color='red', meta=None, expr=None, subsample_size=300, reliability=None, scale_coordinate=False, rotate=None, exchange_xy=False, subset=None)

Bases: match_3D_multi

Highlight the error mapping between datasets, child of class:match_3D_multi()

Parameters:

• dataset_A (pandas.core.frame.DataFrame) – pandas dataframe which contain [‘index’,’x’,’y’]

• dataset_B (pandas.core.frame.DataFrame) – pandas dataframe which contain [‘index’,’x’,’y’]

• matching (numpy.ndarray) – matching results

• mode (typing.Optional[str]) – which cell pairs to highlight

• highlight_color (typing.Optional[str]) – color to highlight the line

• meta (typing.Optional[str]) – dataframe colname of meta, such as celltype

• expr (typing.Optional[str]) – dataframe colname of gene expr

• subsample_size (typing.Optional[int]) – subsample size of matches

• reliability (typing.Optional[numpy.ndarray]) – if the match is reliable

• scale_coordinate (typing.Optional[bool]) – if scale the coordinate via data - np.min(data)) / (np.max(data) - np.min(data))

• rotate (typing.Optional[typing.List[str]]) – how to rotate the slides (force scale_coordinate)

• change_xy – exchange x and y on dataset_B

• subset (typing.Union[numpy.ndarray, typing.List[int], None]) – index of query cells to be plotted

Note

dataset_A and dataset_B can in different length

Methods

draw_lines

Draw lines between paired cells in two datasets