stereo.algorithm.regulatory_network_inference.PlotRegulatoryNetwork.spatial_scatter_by_regulon#

PlotRegulatoryNetwork.spatial_scatter_by_regulon(network_res_key='regulatory_network_inference', reg_name=None, dot_size=None, palette='CET_L4', width=None, height=None, vmin=None, vmax=None, **kwargs)[source]#

Plot genes of one regulon on a 2D map

Parameters:

  • network_res_key (str) – the key which specifies inference regulatory network result in data.tl.result, defaults to ‘regulatory_network_inference’

  • reg_name (Optional[str]) – specify the regulon you want to draw, defaults to None, if none, will select randomly.

  • dot_size (Optional[int]) – marker size, defaults to None

  • palette (str) – Color theme, defaults to ‘CET_L4’

  • height (Optional[int]) – height of drawing

  • width (Optional[int]) – width of drawing

  • vmin (Optional[float]) – The value representing the lower limit of the color scale. Values smaller than vmin are plotted with the same color as vmin.

  • vmax (Optional[float]) – The value representing the lower limit of the color scale. Values smaller than vmin are plotted with the same color as vmin.

  • reorganize_coordinate –

    if the data is merged from several slices, whether to reorganize the coordinates of the obs(cells), if set it to a number, like 2, the coordinates will be reorganized to 2 columns on coordinate system as below:

    data1 data2
    data3 data4
    data5 …
    … …

    if set it to False, the coordinates will not be changed.

  • horizontal_offset_additional – the additional offset between each slice on horizontal direction while reorganizing coordinates.

  • vertical_offset_additional – the additional offset between each slice on vertical direction while reorganizing coordinates.

Returns:

matplotlib.figure