.. include:: sinebow.rst

:sinebow18:`In a notebook`
==========================

I have three thorough tutorials on using Omnipose in a Jupyter notebook. The first focuses on mono-channel segmentation of locally saved images. The second shows how to use a second channel to aid in segmentation, also taking the opportunity to demonstrate how to download images on-the-fly in a notebook. The third shows how to do 3D segmentation, dealing with GPU VRAM bottlenecks and visualization strategies along the way. 


.. toctree::
    :maxdepth: 1
    
    examples/mono_channel_bact.ipynb
    examples/multi_channel_cyto.ipynb
    examples/mono_channel_3D.ipynb
    

See `settings <settings.html>`__ for more information on algorithm parameters.