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labsyspharm · Mar 1, 2024 · d1efd8a · d1efd8a
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diff --git a/scimap/tools/_spatial_count.py b/scimap/tools/_spatial_count.py
@@ -84,17 +84,17 @@ def spatial_count (adata,
     ```python
     
     # Analyze spatial relationships using the radius method
-    adata = spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                           phenotype='phenotype', method='radius', radius=50,
                           label='neighborhood_radius50')
 
     # Explore spatial neighborhoods with KNN
-    adata = spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                           phenotype='phenotype', method='knn', knn=15,
                           label='neighborhood_knn15')
 
     # 3D spatial analysis using a radius method
-    adata = spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_count(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                           z_coordinate='Z_centroid', phenotype='phenotype', method='radius', radius=30,
                           label='neighborhood_3D_radius30')
     

diff --git a/scimap/tools/_spatial_distance.py b/scimap/tools/_spatial_distance.py
@@ -66,15 +66,15 @@ def spatial_distance (adata,
     ```python
     
     # Calculate spatial distance in 2D
-    adata = spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                              phenotype='cell_type', label='2D_distance')
 
     # Calculate spatial distance in 3D
-    adata = spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                              z_coordinate='Z_centroid', phenotype='cell_type', label='3D_distance')
 
     # Calculate spatial distance for a specific image subset
-    adata = spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
+    adata = sm.tl.spatial_distance(adata, x_coordinate='X_centroid', y_coordinate='Y_centroid',
                              phenotype='cell_type', imageid='image_id', subset='image01',
                              label='distance_image01')