The napari hub is transitioning to a community-run implementation due to launch in June 2025.
Since October 1, 2024, this version is no longer actively maintained and will not be updated. New plugins and plugin updates will continue to be listed.

BIOMAG Annotator

napari-biomag-annotator

An annotator tool collection by the BIOMAG group.

View project data
Workflow step:
Image annotation
Image segmentation
Image segmentation›Cell segmentation
Image segmentation›Model-based segmentation
Object classification
Image modality:
Fluorescence microscopy
Confocal microscopy
Electron microscopy
Medical imaging

This plugin allows object annotation on 2/3D images using 4 assisted annotation methods arising from two napari plugins:

Installation

Installation is possible with pip, napari or scripts.

Pip

You can install napari-biomag-annotator via [pip]:

pip install napari[all]
pip install napari-biomag-annotator

To install latest development version :

pip install git+https://github.com/biomag-lab/napari-biomag-annotator.git

On Linux distributions, the following error may arise upon napari startup after the installation of the plugin: Could not load the Qt platform plugin “xcb” in “” even though it was found. In this case, the manual install of libxcb-xinerama0 for Qt is required:

sudo apt install libxcb-xinerama0

Version:

  • 0.0.3

Last updated:

  • 11 January 2024

First released:

  • 11 January 2024

License:

Supported data:

Plugin type:

Open extension:

Save extension:

Save layers:

GitHub activity:

  • Stars: 6
  • Forks: 0
  • Issues + PRs: 2

Python versions supported:

Operating system:

Requirements:

  • napari
  • napari-plugin-engine >=0.1.4
  • napari-annotatorj
  • napari-nD-annotator
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