lmcinnes/umap

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Uniform Manifold Approximation and Projection

Stars: 8.3k
Forks: 871
Open beginner issues: 0
Indexed issues: 491
Avg merge: 1d 13h
Merged PRs (30d): 5

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Sep 13, 2026
Latest indexed: Sep 19, 2026
Contributing guide: Contributing guide
Code of conduct: Code of conduct
Beginner labels: help wanted good first issue

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491 open issues indexed

Possible index mismatch in `transform()` with `unique=True` Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

lmcinnes/umap#1280 · Opened Jul 30, 2026
`random_state` does not make UMAP deterministic when the input contains duplicate rows Open

Difficulty 4/5 3-5 days Newbie friendliness 55/100

lmcinnes/umap#1277 · 1 comment · Opened Jun 11, 2026
Importing umap throws "SystemError: CPUDispatcher(<function make_heap at 0x0000020B1ACFEE80>) returned a result with an exception set" Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1259 · 1 comment · Opened May 19, 2026
Details of UMAP metric options Open

Difficulty 2/5 1-3 hours Newbie friendliness 42/100

lmcinnes/umap#1246 · 2 comments · Opened Mar 4, 2026
pynndescent 0.6.0 bug Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1239 · Opened Feb 9, 2026
`umap-learn==0.5.10` not available in PyPI Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

lmcinnes/umap#1234 · 3 reactions · Opened Dec 10, 2025
Differences in results between the old and new versions Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1232 · 4 comments · Opened Dec 5, 2025
ZeroDivisionError in `inverse_transform()` Open

Difficulty 3/5 1-2 days Newbie friendliness 48/100

lmcinnes/umap#1228 · 6 comments · Opened Nov 2, 2025
Is there any way I can get the gradient value of the alignment loss Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

lmcinnes/umap#1227 · 1 comment · Opened Oct 31, 2025
Computational of the local dimension interrupted by empty return values from PCA Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

lmcinnes/umap#1225 · Opened Oct 25, 2025
UMAP transform yields different embeddings for the same fitted model when transforming a subset vs. transforming all then sub-selecting Open

Difficulty 4/5 3-5 days Newbie friendliness 38/100

lmcinnes/umap#1224 · 1 reaction · Opened Oct 20, 2025
Applying transform() to mixed datasets. Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

lmcinnes/umap#1221 · 2 comments · Opened Oct 9, 2025
Increasing loss on ParametricUMAP training with Keras 3.7 on GPU Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

lmcinnes/umap#1211 · 1 comment · Opened Jul 31, 2025
umap-learn-0.5.8 has not been published on pypi ?!? Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1204 · Opened Jun 8, 2025
add annembed to UMAP Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

lmcinnes/umap#1203 · 1 reaction · Opened May 19, 2025
Nan during GPU training Open

Difficulty 4/5 3-5 days Newbie friendliness 38/100

lmcinnes/umap#1200 · 8 comments · 1 reaction · Opened May 6, 2025
TypeError: unhashable type: 'list' on import Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

lmcinnes/umap#1198 · Opened Apr 21, 2025
omp_set_nested routine deprecated, please use omp_set_max_active_levels instead Open

Difficulty 3/5 1-2 days Newbie friendliness 52/100

lmcinnes/umap#1197 · 1 comment · Opened Apr 12, 2025
How to optimize UMAP parameters for UMAP enhanced HDBSCAN clustering on 1536 dimension embeddings Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

lmcinnes/umap#1196 · 1 comment · Opened Apr 10, 2025
changing in the setup.py Open

Difficulty 2/5 1-3 hours Newbie friendliness 50/100

lmcinnes/umap#1193 · Opened Mar 23, 2025
Best way to compress Parametric UMAP encoder files (if possible) Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1192 · Opened Mar 19, 2025
ONNX export bug Open

Difficulty 3/5 1-2 days Newbie friendliness 45/100

lmcinnes/umap#1187 · Opened Feb 20, 2025
Is it possible to use UMAP to analyze and find correspondences between gaussian distributions of different space? Open

Difficulty 5/5 Over a week Newbie friendliness 15/100

lmcinnes/umap#1186 · Opened Feb 20, 2025
Theoretical question about scaling to an arbitrary number of points Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

lmcinnes/umap#1185 · 2 comments · Opened Feb 11, 2025
Conflict with Bokeh when trying to import umap.plot - using sagemaker lab Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

lmcinnes/umap#1184 · 1 reaction · Opened Feb 10, 2025
UMAP on Billions of Data Points + Sample Weighting Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

lmcinnes/umap#1182 · 3 comments · Opened Feb 3, 2025
Hang when running without tensorflow Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

lmcinnes/umap#1181 · Opened Jan 29, 2025
Nans when following Re-training Parametric UMAP with landmarks tutorial Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1180 · 7 comments · Opened Jan 24, 2025
question on random result Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

lmcinnes/umap#1179 · Opened Jan 22, 2025
Bug fitting umap with numba Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1175 · Opened Jan 8, 2025
Replace force_all_finite with ensure_all_finite to Address FutureWarning Open

Difficulty 2/5 1-3 hours Newbie friendliness 55/100

lmcinnes/umap#1174 · 8 comments · 6 reactions · Opened Jan 6, 2025
Since 18 December 2024, the points (or objects) without name display the name of the layer! Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1170 · Opened Dec 19, 2024
Poor results on new unseen test data using UMAP Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1165 · 1 comment · Opened Nov 27, 2024
Issue with Reproducing UMAP Model from Outliers Tutorial Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1164 · Opened Nov 27, 2024
Support for Python 3.13 Open

Difficulty 3/5 1-2 days Newbie friendliness 42/100

lmcinnes/umap#1163 · 4 comments · 7 reactions · Opened Nov 25, 2024
Embedding Quality Difference Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

lmcinnes/umap#1161 · 5 comments · Opened Nov 18, 2024
Recommended way to save umap instances and reliably load it Open

Difficulty 5/5 Over a week Newbie friendliness 30/100

lmcinnes/umap#1160 · 3 reactions · Opened Nov 14, 2024
cannot import umap on my MacBook Pro M1 laptop Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

lmcinnes/umap#1159 · Opened Nov 11, 2024
Coloring categories with umap.plot.connectivity: edge_bundling='hammer' Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1158 · Opened Oct 30, 2024
simplicial_set_embedding with parallel behaves not as expected Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

lmcinnes/umap#1155 · Opened Oct 18, 2024
verbose turns on both tqdm and separate progress message Open

Difficulty 1/5 Under an hour Newbie friendliness 50/100

lmcinnes/umap#1154 · Opened Oct 17, 2024
kernel crash for large dataset Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1151 · Opened Oct 10, 2024
joblib.hash calls fail on FIPS-140-mode RHEL systems Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

lmcinnes/umap#1150 · 1 reaction · Opened Oct 8, 2024
output umap clusters (label, features and cluster id) Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

lmcinnes/umap#1149 · 1 comment · Opened Sep 3, 2024
Parametric UMAP unknown shape error when fit on large datasets Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

lmcinnes/umap#1148 · 1 comment · 2 reactions · Opened Aug 18, 2024
Recommendations on densMAP vs. UMAP Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

lmcinnes/umap#1146 · Opened Aug 13, 2024
Add georeferenced tiff image ad layer Open

Difficulty 5/5 Over a week Newbie friendliness 15/100

lmcinnes/umap#1145 · Opened Aug 7, 2024
Higher Loss Values in Parametric UMAP Notebooks Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

lmcinnes/umap#1142 · 2 comments · Opened Jul 23, 2024
Why are the ticks of the plot disabled? Open

Difficulty 2/5 1-3 hours Newbie friendliness 48/100

lmcinnes/umap#1141 · 3 comments · Opened Jul 23, 2024
More granular editor access. Multiple groups and per layer assignment Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

lmcinnes/umap#1140 · 4 comments · Opened Jul 17, 2024

lmcinnes/umap

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