scverse / pertpy

Perturbation Analysis in the scverse ecosystem.
https://pertpy.readthedocs.io/en/latest/
MIT License
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Unexpected keyword argument `size` when running Milo `plot_da_beeswarm` #525

Closed namsaraeva closed 3 months ago

namsaraeva commented 4 months ago

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import pertpy as pt
import scanpy as sc

adata = pt.dt.bhattacherjee()
milo = pt.tl.Milo()
mdata = milo.load(adata)
sc.pp.neighbors(mdata["rna"])
milo.make_nhoods(mdata["rna"])
mdata = milo.count_nhoods(mdata, sample_col="orig.ident")
milo.da_nhoods(mdata, design="~label")
milo.annotate_nhoods(mdata, anno_col='cell_type')
milo.plot_da_beeswarm(mdata)

Last line gives an AttributeError:

grafik

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