add visualization code

app.py

@@ -352,6 +352,25 @@ with dyna1_app:
         with gr.Row(visible=False) as results_esm2:
             csv_output_esm2 = gr.File(label="Download Results (.csv)")
 
+    gr.Markdown("""
+    # Visualization
+    
+    We visualize probabilities of exchange on protein structures using [PyMol](https://www.pymol.org). To re-create the putty visualization on your protein, import the pdb file into PyMol and copy-paste the following commands into the PyMol command line:
+    
+    ```
+    cartoon putty; set cartoon_putty_transform, 6; set cartoon_putty_radius, 0.25; set cartoon_putty_range, 0.1; set cartoon_putty_scale_max, 10
+    ```
+    
+    Annotated:
+    ```
+    cartoon putty
+    set cartoon_putty_transform, 6 #scaled linear transformation
+    set cartoon_putty_radius, 0.25 # min radius for p=0
+    set cartoon_putty_range, 0.1 # min_radius / max_radius, sets max_radius=2.5
+    set cartoon_putty_scale_max, 10 #max_radius / min_radius
+    ```
+    """)
+    
     def toggle_model_inputs(choice):
         if choice == "ESM3":
             return gr.update(visible=True), gr.update(visible=False), gr.update(visible=True), gr.update(visible=False), gr.update(visible=True)