sc.pl.dotplot()

sc.pl.dotplot()

https://scanpy.readthedocs.io/en/stable/generated/scanpy.pl.dotplot.html#scanpy.pl.dotplot

When marker gene inputs are list

sc.pl.dotplot(adata, groupby=, var_names=, use_raw=, layer=, figsize=)

• 1. groupby=: base on what to group; 'leiden'
• 2. var_names=: features for plot
• 3. use_raw=: if use the .raw.X for plot; default=None, the .raw.X will be used if present
• 4. layer=: key in .layer used for plotting
• 5. figsize=: size of the plot; (3, 2)

sc.pl.dotplot(scanpy_object, var_names=['TNFRSF4', 'CPSF3L', 'ATAD3C', 'C1orf86', 'RER1', 'TNFRSF25', 'TNFRSF9'], groupby='leiden')

When marker gene inputs are dictionary

sc.pl.dotplot(adata, groupby=, var_names=, use_raw=, layer=, figsize=)

• 1. groupby=: base on what to group; 'leiden'
• 2. var_names=: features for plot
• 3. use_raw=: if use the .raw.X for plot; default=None, the .raw.X will be used if present
• 4. layer=: key in .layer used for plotting
• 5. figsize=: size of the plot; (3, 2)

sc.pl.dotplot(scanpy_object_used, var_names={'HBC':['ENSMUSG00000037405','ENSMUSG00000045545'], 'mOSN':'ENSMUSG00000027744'}, groupby='res_0.1')