ccpem/affinity-vae

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Self-supervised method for disentanglement, clustering and classification of objects in multidimensional image data

Stars: 17
Forks: 12
Open beginner issues: 0
Indexed issues: 23

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Aug 19, 2026
Latest indexed: Sep 14, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: good first issue
PR merge metrics: No merged PRs in 30d

Open All

23 open issues indexed

Can we move to an Apache v2 licence Open

ccpem/affinity-vae#7 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Add a contributing guide Open

documentation good first issue

ccpem/affinity-vae#10 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Add to pypi / make a conda package Open

ccpem/affinity-vae#11 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Update the method of metadata gathering from pandas to Cudf (cuda df) Open

priority

ccpem/affinity-vae#22 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Add functions for calculating affinity matrix (both SOAP and FSC) Open

enhancement

ccpem/affinity-vae#32 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Prevent users from leaving a trailing comma at the end of the classes.csv file Open

good first issue priority

ccpem/affinity-vae#63 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 14, 2026
creating read the docs Open

bug

ccpem/affinity-vae#108 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 14, 2026
Refactor evaluation during training (call function from eval rather than test_dir) Open

bug

ccpem/affinity-vae#115 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
strip spaces from the name of classes in affinity.csv or classes.csv Open

good first issue priority

ccpem/affinity-vae#156 · 3 comments · 0 reactions · 1 assignee · Indexed Sep 14, 2026
remove white space from reconstruction plots Open

ccpem/affinity-vae#160 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 14, 2026
selection of encodings for pose and latent interpolation Open

ccpem/affinity-vae#236 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Consolidate embedding code Open

ccpem/affinity-vae#244 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Evaluation should check if data dimension is compatible with model Open

bug

ccpem/affinity-vae#267 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Add tests for the pipeline and the model containing Gaussian splat decoder Open

ccpem/affinity-vae#281 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Refactoring of the codebase Open

enhancement

ccpem/affinity-vae#296 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 14, 2026
Consider binarizing the weights in the splat decoder Open

ccpem/affinity-vae#302 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Improve README Open

documentation

ccpem/affinity-vae#306 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Affinity matrix visualisation fails with matplotlib 3.9.0 Open

bug

ccpem/affinity-vae#312 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 14, 2026
Classifier LR error. Open

ccpem/affinity-vae#314 · 1 comment · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Save val_recon_in as .mrc Open

ccpem/affinity-vae#316 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Save latent space statistics Open

ccpem/affinity-vae#317 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Save statistics as plain text Open

ccpem/affinity-vae#318 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 14, 2026
Specify output file Open

ccpem/affinity-vae#319 · 0 comments · 1 reaction · 0 assignees · Indexed Sep 14, 2026

ccpem/affinity-vae

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