Merge pull request #82 from melonora/main

Fix notebooks

Author: melonora

notebooks/examples/alignment_using_landmarks.ipynb

@@ -184,10 +184,7 @@
      "end_time": "2023-04-10T18:59:26.909684Z",
      "start_time": "2023-04-10T18:59:25.642148Z"
     },
-    "collapsed": false,
-    "jupyter": {
-     "outputs_hidden": false
-    }
+    "collapsed": false
    },
    "source": [
     "Interactive([visium_sdata, xenium_sdata], points=False, shapes=False)"
@@ -264,12 +261,12 @@
     "visium_landmarks = ShapesModel.parse(\n",
     "    np.array([[10556.699, 7829.764], [13959.155, 13522.025], [10621.200, 17392.116]]), geometry=0, radius=500\n",
     ")\n",
-    "visium_sdata.add_shapes(\"visium_landmarks\", visium_landmarks, overwrite=True)\n",
+    "visium_sdata[\"visium_landmarks\"] = visium_landmarks\n",
     "\n",
     "xenium_landmarks = ShapesModel.parse(\n",
     "    np.array([[9438.385, 13933.017], [24847.866, 5948.002], [34082.584, 15234.235]]), geometry=0, radius=500\n",
     ")\n",
-    "xenium_sdata.add_shapes(\"xenium_landmarks\", xenium_landmarks, overwrite=True)"
+    "xenium_sdata[\"xenium_landmarks\"] = xenium_landmarks"
    ]
   },
   {
@@ -338,9 +335,6 @@
    "id": "e71718a2",
    "metadata": {
     "collapsed": false,
-    "jupyter": {
-     "outputs_hidden": false
-    },
     "tags": []
    },
    "outputs": [