TypeError: clone_overlap() got an unexpected keyword argument 'colorby'

[NicolaasVanRenne]

Description of the bug

I am running the tutorial V(D)J analysis. When I run
ddl.tl.clone_overlap(adata, groupby="leiden", colorby="leiden", weighted_overlap=True)
I get this error:
Traceback (most recent call last):
File "", line 1, in
TypeError: clone_overlap() got an unexpected keyword argument 'colorby'

No idea why it does not work.

I can remove the colorby by running ddl.tl.clone_overlap(adata, groupby="leiden", weighted_overlap=True)

But when I plot it, I get this lousy image:

I have no idea why this goes wrong....

Minimal reproducible example

No response

The error message produced by the code above

No response

OS information

No response

Version information

No response

Additional context

No response

[zktuong]

hi @NicolaasVanRenne ,

the function you called is ddl.tl.clone_overlap, which doesn't have the colorby option, hence that error message.
https://sc-dandelion.readthedocs.io/en/latest/modules/dandelion.tools.clone_overlap.html

The reason why the lines are very thick is because you have specified:
weighted_overlap=True - the thickness scales to the number of cells. if False, then it will just be a thin line like in the tutorial.