new - addded slice_explorer

bioMONAI/_modidx.py

@@ -114,4 +114,5 @@
                                     'bioMONAI.visualize.mosaic_image_3d': ('visualize.html#mosaic_image_3d', 'bioMONAI/visualize.py'),
                                     'bioMONAI.visualize.show_images_grid': ('visualize.html#show_images_grid', 'bioMONAI/visualize.py'),
                                     'bioMONAI.visualize.show_plane': ('visualize.html#show_plane', 'bioMONAI/visualize.py'),
+                                    'bioMONAI.visualize.slice_explorer': ('visualize.html#slice_explorer', 'bioMONAI/visualize.py'),
                                     'bioMONAI.visualize.visualize_slices': ('visualize.html#visualize_slices', 'bioMONAI/visualize.py')}}}

bioMONAI/visualize.py

@@ -1,15 +1,15 @@
 # AUTOGENERATED! DO NOT EDIT! File to edit: ../nbs/09_visualize.ipynb.
 
 # %% auto 0
-__all__ = ['mosaic_image_3d', 'show_images_grid', 'show_plane', 'visualize_slices']
+__all__ = ['mosaic_image_3d', 'show_images_grid', 'show_plane', 'visualize_slices', 'slice_explorer']
 
 # %% ../nbs/09_visualize.ipynb 3
 import numpy as np
 import matplotlib.pyplot as plt
 from mpl_toolkits.mplot3d.art3d import Poly3DCollection
-import plotly
+import plotly.io as pio
 import plotly.express as px
-from skimage import exposure, util
+from skimage import util
 from skimage.data import cells3d
 import torchvision
 
@@ -151,7 +151,7 @@ def show_images_grid(images, ax=None, ncols=10, figsize=None, title=None, spacin
 
     return ax
 
-# %% ../nbs/09_visualize.ipynb 11
+# %% ../nbs/09_visualize.ipynb 12
 def show_plane(ax, plane, cmap="gray", title=None, lines=None, linestyle='--', linecolor='white'):
     """
     Display a slice of the image tensor on a given axis with optional dashed lines.
@@ -175,7 +175,7 @@ def show_plane(ax, plane, cmap="gray", title=None, lines=None, linestyle='--', l
         ax.axvline(lines[1], color=linecolor, linestyle=linestyle)
 
 
-# %% ../nbs/09_visualize.ipynb 12
+# %% ../nbs/09_visualize.ipynb 13
 def visualize_slices(data, planes=None, showlines=True, **kwargs):
     """
     Visualize slices of a 3D image tensor along its planes, rows, and columns.
@@ -209,3 +209,31 @@ def visualize_slices(data, planes=None, showlines=True, **kwargs):
     # Show the plot
     plt.show()
 
+
+# %% ../nbs/09_visualize.ipynb 16
+def slice_explorer(data, width=500, height=500, **kwargs):
+    """
+    Visualizes the provided data using Plotly's interactive imshow function with animation support.
+    
+    Args:
+        data (np.array or pd.DataFrame): The data to be visualized, typically a 2D array representing an image sequence.
+        
+    Returns:
+        None: Displays the plot directly.
+    """
+    fig = px.imshow(data, animation_frame=0, binary_string=True)
+
+    # Remove tick labels from axes
+    fig.update_xaxes(showticklabels=False)
+    fig.update_yaxes(showticklabels=False)
+
+    # Set custom size for the plot
+    fig.update_layout(autosize=False, width=width, height=height, **kwargs)
+
+    # Drop animation buttons as they are not supported in this specific configuration
+    fig['layout'].pop('updatemenus')
+
+    # Display the plot using Plotly's show function
+    pio.show(fig)
+
+