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pl.violin will not take "hue" kwarg for seaborn? #1174
Description
Trying to make a violin plot adding the seaborn hue argument will result in ValueError.
In adata, 'timepoint' and 'replicate' are categorical adata.obs containing floats and ints, respectively. 'timepoint' is the age of the embryo from which cells were isolated (9.5, 10.5, etc) and 'replicate' the number of the replica (1, 2, 3).
sc.pl.violin(adata, 'n_genes', jitter=0.4, groupby = 'timepoint', stripplot=False, hue='replicate')
sc.pl.violin(adata, 'n_genes', jitter=0.4, groupby = 'timepoint', stripplot=False, hue='replicate')
Traceback (most recent call last):
File "<ipython-input-5-756b321177a2>", line 1, in <module>
sc.pl.violin(adata, 'n_genes', jitter=0.4, groupby = 'timepoint', stripplot=False, hue='replicate')
File "/home/auesro/anaconda3/envs/Scanpy/lib/python3.7/site-packages/scanpy/plotting/_anndata.py", line 759, in violin
**kwds,
File "/home/auesro/anaconda3/envs/Scanpy/lib/python3.7/site-packages/seaborn/categorical.py", line 2393, in violinplot
color, palette, saturation)
File "/home/auesro/anaconda3/envs/Scanpy/lib/python3.7/site-packages/seaborn/categorical.py", line 559, in __init__
self.establish_variables(x, y, hue, data, orient, order, hue_order)
File "/home/auesro/anaconda3/envs/Scanpy/lib/python3.7/site-packages/seaborn/categorical.py", line 152, in establish_variables
raise ValueError(err)
ValueError: Could not interpret input 'replicate'
Versions:
scanpy==1.4.6 anndata==0.7.1 umap==0.4.1 numpy==1.18.1 scipy==1.4.1 pandas==1.0.3 scikit-learn==0.22.2.post1 statsmodels==0.11.1 python-igraph==0.8.0
Activity
kcArtemis commentedon Sep 20, 2023
Hey,can I look into this issue?