ov.pl.cpdb_group_heatmap error

[qbly27]

here, you might forget to change 'cell_labels' to the celltype_key?

--> 543 source_gene_pd[source_cell]=adata[adata.obs['cell_labels']==source_cell,

Details are above

---

KeyError Traceback (most recent call last)
File ~/miniconda3/envs/ov/lib/python3.11/site-packages/pandas/core/indexes/base.py:3805, in Index.get_loc(self, key)
3804 try:
-> 3805 return self._engine.get_loc(casted_key)
3806 except KeyError as err:

File index.pyx:167, in pandas._libs.index.IndexEngine.get_loc()

File index.pyx:196, in pandas._libs.index.IndexEngine.get_loc()

File pandas/_libs/hashtable_class_helper.pxi:7081, in pandas._libs.hashtable.PyObjectHashTable.get_item()

File pandas/_libs/hashtable_class_helper.pxi:7089, in pandas._libs.hashtable.PyObjectHashTable.get_item()

KeyError: 'cell_labels'

The above exception was the direct cause of the following exception:

KeyError Traceback (most recent call last)
Cell In[135], line 1
----> 1 ov.pl.cpdb_group_heatmap(adata=adata,
2 celltype_key='celltype',
3 means=cpdb_results['means'],
4 cmap={'Target':'Blues','Source':'Reds'},
5 source_cells=[Mast cell'],
6 target_cells=['T cell'],
7 plot_secret=True,
8 min_means=3,
9 nodecolor_dict=None,
10 ax=None,
11 figsize=(2,6),
12 fontsize=10
13 )

File ~/miniconda3/envs/ov/lib/python3.11/site-packages/omicverse/pl/_cpdb.py:543, in cpdb_group_heatmap(adata, celltype_key, means, source_cells, target_cells, min_means, nodecolor_dict, ax, figsize, fontsize, plot_secret, cmap, return_table)
541 source_gene_pd=pd.DataFrame(index=cor.index)
542 for source_cell in source_cells:
--> 543 source_gene_pd[source_cell]=adata[adata.obs['cell_labels']==source_cell,
544 [i.split('_')[0] for i in cor.index]].to_df().mean().values
546 target_gene_pd=pd.DataFrame(index=cor.index)
547 for target_cell in target_cells:

File ~/miniconda3/envs/ov/lib/python3.11/site-packages/pandas/core/frame.py:4102, in DataFrame.getitem(self, key)
4100 if self.columns.nlevels > 1:
4101 return self._getitem_multilevel(key)
-> 4102 indexer = self.columns.get_loc(key)
4103 if is_integer(indexer):
4104 indexer = [indexer]

File ~/miniconda3/envs/ov/lib/python3.11/site-packages/pandas/core/indexes/base.py:3812, in Index.get_loc(self, key)
3807 if isinstance(casted_key, slice) or (
3808 isinstance(casted_key, abc.Iterable)
3809 and any(isinstance(x, slice) for x in casted_key)
3810 ):
3811 raise InvalidIndexError(key)
-> 3812 raise KeyError(key) from err
3813 except TypeError:
3814 # If we have a listlike key, _check_indexing_error will raise
3815 # InvalidIndexError. Otherwise we fall through and re-raise
3816 # the TypeError.
3817 self._check_indexing_error(key)

KeyError: 'cell_labels'

[Starlitnightly]

I'm sorry for the trouble, I'll fix it in the next version, until then you can manually define adata.obs['cell_labels'] = adata.obs[celltype_key] to avoid this error!

Zehua