fix plot_umap_embedding since old version visualize_save_embedding no longer exists - Githubissues

Computational-Morphogenomics-Group / MarkerMap

Marker selection, supervised and unsupervised

MIT License

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fix plot_umap_embedding since old version visualize_save_embedding no longer exists #37

Closed WilsonGregory closed 2 years ago

WilsonGregory commented 2 years ago

Changes

Updated the Jupyter notebooks since I removed the visualize_save_embedding function and replaced with plot_umap_embedding, but I didn't update the jupyter notebooks last time
add the ability to close the figure in plot_umap_embedding, its better for the notebooks where we just want to save them
fixed an issue with SmashPy code in the notebooks where we no longer have the adata kicking around, so we remake it from SmashPyWrapper.prepareData

Testing

Ran some of the notebooks

Doc Changes

None