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quinngroup / ornet-reu-2018

OrNet work part of summer 2018 REU.
MIT License
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Compute affinity matrix "videos" for each cell #10

Open magsol opened 6 years ago

magsol commented 6 years ago

Using output from #8, compute a "video" of affinity matrices for each cell trajectory.

This means: using the method for computing an affinity matrix that Andrew used in the SciPy paper (evaluating each GMM component according to the other component's PDF; we could also experiment with KL-divergence here if we want), build an affinity matrix at that frame/time point. Build out the affinity matrices at all the frames over which the GMM components were evaluated and "stack" the matrices together like a video.

Adurden commented 6 years ago

There is a scaled version of the affinity table which will run on lists of means and covars so once the intermediates are created and dispersed this should be immediately doable.