Merge pull request #298 from DendrouLab/deevdevil88-patch-1

Update run_filter.py
DendrouLab · Aug 27, 2024 · 3db4ccd · 3db4ccd
2 parents 0bc49a4 + 7bfb4e4
commit 3db4ccd
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/panpipes/python_scripts/run_filter.py b/panpipes/python_scripts/run_filter.py
@@ -180,7 +180,7 @@ def test_matching_df_ignore_cat(new_df, old_df):
 # write out the per sample_id cell numbers 
 cell_counts_dict={}
 for mm in mdata.mod.keys():
-    cell_counts_dict[mm] = mdata[mod].obs.sample_id.value_counts().to_frame('n_cells')
+    cell_counts_dict[mm] = mdata[mm].obs.sample_id.value_counts().to_frame('n_cells')
 
 cell_counts = pd.concat(cell_counts_dict).reset_index().rename(
     columns={"level_0": "modality", "level_1": "sample_id"})