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PHATE 2.5 (Fast scalable PHATE, run from Python)
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@scottgigante scottgigante released this 22 May 22:46
· 192 commits to master since this release
v0.2.5
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PHATE now calls the much faster code written in Python to perform dimensionality reduction using the reticulate package. PHATE must be installed in both Python and R in order to use the R code.

Other changes:

  • precomputed distance matrices are now accepted, with phate(data=distances, knn.dist.method="precomputed")
  • precomputed affinity matrices must be provided in the same way, with phate(data=affinities, knn.dist.method="precomputed"), rather than via g.kernel.
  • multiprocessing is supported - call phate(..., n.jobs=5) to use 5 cores or phate(..., n.jobs = -1) to use all available.
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