finish cnmfe viz

nel-lab · Nov 8, 2023 · 7cfc314 · 7cfc314
1 parent 24a0bca
commit 7cfc314
Showing 1 changed file with 41 additions and 25 deletions.
diff --git a/notebooks/cnmfe.ipynb b/notebooks/cnmfe.ipynb
@@ -707,7 +707,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "viz_mcor.show()"
+    "viz_mcor.show(sidecar=True)"
    ]
   },
   {
@@ -754,6 +754,34 @@
     "viz_mcor.image_widget.frame_apply = funcs"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "id": "956cfc23-f47b-4b4d-8416-538a4feadc38",
+   "metadata": {},
+   "source": [
+    "Same exact visualization widget as shown in the `mcorr_cnmf.ipynb` 2p demo, so the same level of customization applies. It's the same type of object."
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "e53b19ff-c5fc-45a9-9336-bbc27b3ddd5a",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "viz_mcor.image_widget.cmap = \"gray\""
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "2b962143-07ac-4097-ad75-c4799ff41a0f",
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "viz_mcor.close()"
+   ]
+  },
   {
    "cell_type": "markdown",
    "id": "9ad69731-e057-4ad7-acf7-dd61269ecd72",
@@ -784,8 +812,8 @@
    "outputs": [],
    "source": [
     "# make a list of rows we want to keep using the uuids\n",
-    "rows_keep = [df.iloc[3].uuid]\n",
-    "rows_keep"
+    "# rows_keep = [df.iloc[3].uuid]\n",
+    "# rows_keep"
    ]
   },
   {
@@ -795,11 +823,11 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "for i, row in df.iterrows():\n",
-    "    if row.uuid not in rows_keep:\n",
-    "        df.caiman.remove_item(row.uuid)\n",
+    "# for i, row in df.iterrows():\n",
+    "#     if row.uuid not in rows_keep:\n",
+    "#         df.caiman.remove_item(row.uuid)\n",
     "\n",
-    "df"
+    "# df"
    ]
   },
   {
@@ -1154,18 +1182,6 @@
     "# Visualize using `mesmerize-viz`"
    ]
   },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "id": "800ec0ae-d636-490d-9f3d-2d18cef3f671",
-   "metadata": {
-    "tags": []
-   },
-   "outputs": [],
-   "source": [
-    "from mesmerize_viz import *"
-   ]
-  },
   {
    "cell_type": "code",
    "execution_count": null,
@@ -1175,7 +1191,7 @@
    },
    "outputs": [],
    "source": [
-    "viz = df.cnmf.viz(\n",
+    "viz_cnmf = df.cnmf.viz(\n",
     "    image_data_options=[\"input\", \"rcm\"], # cnmfe does not support rcb and residuals yet\n",
     ")"
    ]
@@ -1189,15 +1205,15 @@
    },
    "outputs": [],
    "source": [
-    "viz.show()"
+    "viz_cnmf.show(sidecar=True)"
    ]
   },
   {
    "cell_type": "markdown",
    "id": "5d36df25-2c1b-498b-9250-91b49fc3466a",
    "metadata": {},
    "source": [
-    "# This seemingly complex visualization is still customizable!\n",
+    "# This rich visualization is still customizable!\n",
     "\n",
     "Public attributes:\n",
     "\n",
@@ -1229,7 +1245,7 @@
    },
    "outputs": [],
    "source": [
-    "viz.image_widget"
+    "viz_cnmf.image_widget"
    ]
   },
   {
@@ -1245,7 +1261,7 @@
     "    0: lambda frame: high_pass_filter_space(frame, (3, 3))\n",
     "}\n",
     "\n",
-    "viz.image_widget.frame_apply = funcs"
+    "viz_cnmf.image_widget.frame_apply = funcs"
    ]
   },
   {
@@ -1255,7 +1271,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "viz.image_widget.cmap = \"gray\""
+    "viz_cnmf.image_widget.cmap = \"gray\""
    ]
   },
   {