scFates.pl.slide_cors¶
- scFates.pl.slide_cors(adata, root_milestone, milestones, col=None, basis='umap', win_keep=None, frame_emb=True, focus=None, top_focus=4, labels=None, fig_height=6, fontsize=16, fontsize_focus=18, point_size=20, show=None, save=None, kwargs_text={}, kwargs_con={}, kwargs_adjust={}, **kwargs)¶
Plot results generated from tl.slide_cors.
- Parameters
- adata :
AnnData Annotated data matrix.
- root_milestone
tip defining progenitor branch.
- milestones
tips defining the progenies branches.
- genesetA
plot correlation with custom geneset.
- genesetB
plot correlation with custom geneset.
- col :
None|listOptional[list] (default:None) specify color for the two modules, by default according to their respective milestones.
- basis :
str(default:'umap') Name of the obsm basis to use.
- win_keep :
None|listOptional[list] (default:None) plot only a subset of windows.
- frame_emb :
bool(default:True) add frame around emb plot.
- focus
add on the right side a scatter focusing one defined window.
- top_focus
highlight n top markers for each module, having the greatest distance to 0,0 coordinates.
- labels :
None|tupleOptional[tuple] (default:None) labels defining the two modules, named after the milestones if None, or ‘A’ and ‘B’ if less than two milestones is used.
- fig_height :
float(default:6) figure height.
- fontsize :
int(default:16) repulsion score font size.
- fontsize_focus :
int(default:18) fontsize of x and y labels in focus plot.
- point_size :
int(default:20) correlation plot point size.
- show :
bool|NoneOptional[bool] (default:None) show the plot.
- save :
str|bool|NoneUnion[str,bool,None] (default:None) save the plot.
- kwargs_text :
dict(default:{}) parameters for the text annotation of the labels.
- kwargs_con :
dict(default:{}) parameters passed on the ConnectionPatch linking the focused plot to the rest.
- kwargs_adjust :
dict(default:{}) parameters passed to adjust_text.
- **kwargs
if basis=dendro, arguments passed to
scFates.pl.dendrogram()
- adata :
- Returns
- Return type
If show==False a matrix of
Axes