MIC-DKFZ/napari-nninteractive

View on GitHub

nnInteractive plugin for Napari - nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding boxes, and lasso. Trained on 120+ diverse 3D datasets, it sets a new standard in accuracy, usability, and adaptability for clinical and research applications.

Stars: 123
Forks: 19
Open beginner issues: 0
Indexed issues: 15

Dominant language: Python
License: Apache-2.0
Last GitHub push: Jul 7, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

Open All

15 open issues indexed

Adding multiple scribbles at once? Open

Difficulty 4/5 3-5 days Newbie friendliness 42/100

MIC-DKFZ/napari-nninteractive#35 · Opened Jul 6, 2026
Error when clicking [Export] Open

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

MIC-DKFZ/napari-nninteractive#33 · 2 comments · Opened Jul 2, 2026
OME-Zarr compatibility Open

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

MIC-DKFZ/napari-nninteractive#32 · 2 comments · Opened Jul 2, 2026
Do not override existing labels when writing segmentations into the same label mask Open

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

MIC-DKFZ/napari-nninteractive#31 · 4 comments · Opened Jul 2, 2026
Support for importing existing labels as positive/negative scribbles Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

MIC-DKFZ/napari-nninteractive#28 · 2 comments · Opened Feb 12, 2026
Why doesn't it work well on my local machine? Open

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

MIC-DKFZ/napari-nninteractive#25 · 1 comment · Opened Oct 26, 2025
how much memory is needed to segment a 5GB dataset Open

Difficulty 4/5 3-5 days Newbie friendliness 32/100

MIC-DKFZ/napari-nninteractive#21 · 21 comments · Opened Jul 22, 2025
error while segmenting a 3D dataset Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

MIC-DKFZ/napari-nninteractive#20 · 2 comments · Opened Jul 10, 2025
saving a single labels file Open

Difficulty 3/5 1-2 days Newbie friendliness 30/100

MIC-DKFZ/napari-nninteractive#19 · 1 comment · Opened Jun 25, 2025
Getting started instructions do not install napari Open

Difficulty 1/5 Under an hour Newbie friendliness 58/100

MIC-DKFZ/napari-nninteractive#18 · 2 comments · Opened May 29, 2025
Crash during prediction Open

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

MIC-DKFZ/napari-nninteractive#17 · 3 comments · Opened Mar 31, 2025
`requires-python` value too low for instant install. Open

Difficulty 1/5 Under an hour Newbie friendliness 35/100

MIC-DKFZ/napari-nninteractive#16 · 2 comments · Opened Mar 25, 2025
Considering the possibility to remove points / annotations and restart the prediction Open

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

MIC-DKFZ/napari-nninteractive#11 · 3 comments · Opened Mar 17, 2025
Please don't depend on *specific* Qt backend: `napari[pyqt]` Open

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

MIC-DKFZ/napari-nninteractive#7 · 6 comments · 4 reactions · Opened Mar 14, 2025
Consider adding support for multiscale images (e.g. OME-Zarr) Open

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

MIC-DKFZ/napari-nninteractive#1 · 2 comments · 1 reaction · Opened Mar 13, 2025

MIC-DKFZ/napari-nninteractive

Get new issues in your inbox