napari labels overlap

napari-labels-overlap

create an overlap labels layer from two labels layers


    View project data

    License PyPI Python Version tests codecov napari hub

    create an overlap labels layer from two labels layers

    Description

    This plugin takes two labels layers (layerA, layerB) as inputs, and generate the overlapped regions as a binary labels layer. Three modes:
    (1) A_OR_B: new layer = layerA OR layerB (union)
    (2) A_AND_B: new layer = layerA AND layerB (intersection)
    (3) A_OUTSIDE_B: new layer = layerA OUTSIDE layerB (complement)

    labels_overlap

    Applicaions

    • Object colocalization
    • Merge separately identified objects

    Future work

    • Support N labels layers
    • Basic coloc stats (% volume overlap)
    • Output Labels with distinct IDs and links to original label IDs

    Release log

    • 0.0.2
      -- Run on npe2
      -- Add output types: binary/connected component
    • 0.0.1
      -- Run on npe1

    This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

    Installation

    You can install napari-labels-overlap via pip:

    pip install napari-labels-overlap

    To install latest development version :

    pip install git+https://github.com/chili-chiu/napari-labels-overlap.git

    Contributing

    Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

    License

    Distributed under the terms of the BSD-3 license, "napari-labels-overlap" is free and open source software

    Issues

    If you encounter any problems, please file an issue along with a detailed description.

    Version:

    • 0.0.3

    Release date:

    • 22 June 2022

    First released:

    • 30 November 2021

    License:

    • BSD-3-Clause

    Supported data:

    • Information not submitted

    Plugin type:

    GitHub activity:

    • Stars: 1
    • Forks: 0
    • Issues + PRs: 0

    Python versions supported:

    Operating system:

    Requirements:

    • scikit-image

    Sign up to receive updates