simba.pl.pcs_features
- simba.pl.pcs_features(adata, log=False, size=3, show_cutoff=True, pad=1.08, w_pad=None, h_pad=None, fig_size=(3, 3), fig_ncol=3, save_fig=None, fig_path=None, fig_name='plot_pcs_features.pdf', **kwargs)[source]
Plot features that contribute to the top PCs.
- Parameters:
adata (Anndata) – Annotated data matrix.
log (bool, optional (default: True)) – If True, variance_ratio will be log-transformed.
show_cutoff (bool, optional (default: True)) – If True, cutoff on n_pcs will be shown
size (int, optional (default: 3)) – The marker size
pad (float, optional (default: 1.08)) – Padding between the figure edge and the edges of subplots, as a fraction of the font size.
h_pad (float, optional (default: None)) – Padding (height/width) between edges of adjacent subplots, as a fraction of the font size. Defaults to pad.
w_pad (float, optional (default: None)) – Padding (height/width) between edges of adjacent subplots, as a fraction of the font size. Defaults to pad.
fig_size (tuple, optional (default: (3,3))) – figure size.
fig_ncol (int, optional (default: 3)) – the number of columns of the figure panel
save_fig (bool, optional (default: False)) – if True,save the figure.
fig_path (str, optional (default: None)) – If save_fig is True, specify figure path.
fig_name (str, optional (default: ‘plot_pcs_features.pdf’)) – if save_fig is True, specify figure name.
**kwargs (dict, optional) – Other keyword arguments are passed through to
plt.scatter
- Return type:
None