openproblems-bio / openproblems

Formalizing and benchmarking open problems in single-cell genomics
MIT License
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Add spectral baseline to dimensionality reduction #705

Closed scottgigante-immunai closed 1 year ago

scottgigante-immunai commented 1 year ago

The high-dimensional PCA does well in global metrics, but poorly in local knn metrics. This baseline (200-dimensional laplacian eigenmaps) should perform well with local knn ranking metrics.

scottgigante-immunai commented 1 year ago

Tests passing at https://tower.nf/orgs/openproblems-bio/workspaces/openproblems-bio/watch/nnZQxJ2esb0PE