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AllenCellModeling / pytorch_integrated_cell

Integrated Cell project implemented in pytorch
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Results: Figure 3 #66

Open donovanr opened 4 years ago

donovanr commented 4 years ago

Issue summary

Fewer images / organelles / conditions

Details

Too many sample images, way too teeny. Five columns should be enough in part B to make the point. The label at the bottom in part B should be “beta” not B. Labels in part C are goofy (dna intensity intensity std). It is weird and confusing to have mitotic cells sampled in some but not all of the values of beta. Either we should deliberately include them in all betas, or we should not have any mitotic images (mitosis can be better explored in Fig. 4).

TODO

donovanr commented 3 years ago

planning to drop feature distributions and implement subsequent minor revisions to figure layout.

reason for dropping is that featurization code can't handle the generated images well due to segmentation and 2D/3D issues.