Code repository for our optimized manifold learning project.
Preprint:
Jan Kočí, Olga Flegontova, Piya Changmai, Leonid A Vyazov, Leo R Cooper, Seyedhossein Ashrafikarahroudi, Zeynep Şencan, Pavel Flegontov (2026): Sparse sampling and rare-variant depletion distort PCA visualizations of population structure: recovery with objective-guided manifold learning. bioRxiv 10.64898/2026.08.11.744230