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We’re removing scanpy.external

enhancement

Status: Open.

#182 In KrishnaswamyLab/PHATE;

· flying-sheep opened on Aug 14, 2026

Enable out-of-sample projection with precomputed affinities

enhancement

Status: Open.

Feature

#181 In KrishnaswamyLab/PHATE;

· aumona opened on Jul 1, 2026

The PHATE Operator get's stuck in the landmark operation when using precomputed knn_dist

bug

Status: Open.

#175 In KrishnaswamyLab/PHATE;

· bjoaofelipe opened on Mar 3, 2026

Update PHATE documentation

Status: Open.

#173 In KrishnaswamyLab/PHATE;

· MattScicluna opened on Jan 26, 2026

PHATE incompatible with NumPy ≥2.0 despite requirement specifying numpy>=1.16.0

bug

Status: Open.

#169 In KrishnaswamyLab/PHATE;

· nishuang83 opened on Oct 25, 2025

memory requirement for large-ish dataset

question

Status: Open.

#155 In KrishnaswamyLab/PHATE;

· yanlingpan opened on May 30, 2025

Cannot import PHATE

Status: Open.

#154 In KrishnaswamyLab/PHATE;

· mmr181 opened on May 22, 2025

EBdata used for trajectory inference？

question

Status: Open.

#150 In KrishnaswamyLab/PHATE;

· Han-zh210 opened on Dec 27, 2024

How does PHATE handle new data?

question

Status: Open.

#147 In KrishnaswamyLab/PHATE;

· wsk-byun opened on Nov 9, 2024

What is happening in mds.method = "classic"?

question

Status: Open.

#145 In KrishnaswamyLab/PHATE;

· JayaniLakshika opened on Sep 6, 2024

Providing init to the phateR implementation only saves up time if only the parameter t is changing but not other parameters?

question

Status: Open.

#143 In KrishnaswamyLab/PHATE;

· erzakiev opened on Apr 16, 2024

Intrinsic dimension of PHATE embedding identifes branches

question

Status: Open.

#142 In KrishnaswamyLab/PHATE;

· YYT1002 opened on Mar 28, 2024