{"id":19093386,"url":"https://github.com/imagej/napari-imagej","last_synced_at":"2025-08-01T23:09:13.890Z","repository":{"id":37794050,"uuid":"386996113","full_name":"imagej/napari-imagej","owner":"imagej","description":"Use ImageJ functionality from napari","archived":false,"fork":false,"pushed_at":"2025-03-31T19:35:07.000Z","size":4127,"stargazers_count":29,"open_issues_count":38,"forks_count":5,"subscribers_count":5,"default_branch":"main","last_synced_at":"2025-04-15T06:54:19.081Z","etag":null,"topics":["fiji","imagej","java","napari","python"],"latest_commit_sha":null,"homepage":"https://napari-imagej.readthedocs.io","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-2-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/imagej.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2021-07-17T17:08:52.000Z","updated_at":"2025-04-08T14:39:25.000Z","dependencies_parsed_at":"2023-02-18T09:46:09.116Z","dependency_job_id":"deb25858-6090-4c82-9552-60f76361821f","html_url":"https://github.com/imagej/napari-imagej","commit_stats":null,"previous_names":[],"tags_count":2,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/imagej%2Fnapari-imagej","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/imagej%2Fnapari-imagej/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/imagej%2Fnapari-imagej/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/imagej%2Fnapari-imagej/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/imagej","download_url":"https://codeload.github.com/imagej/napari-imagej/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":249023710,"owners_count":21199958,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["fiji","imagej","java","napari","python"],"created_at":"2024-11-09T03:24:25.921Z","updated_at":"2025-08-01T23:09:13.857Z","avatar_url":"https://github.com/imagej.png","language":"Python","funding_links":[],"categories":["🏝️ Napari"],"sub_categories":["Plugins"],"readme":"# napari-imagej\n\n### A [napari] plugin for access to [ImageJ2]\n\n[![License](https://img.shields.io/pypi/l/napari-imagej.svg?color=green)](https://github.com/imagej/napari-imagej/raw/main/LICENSE)\n[![PyPI](https://img.shields.io/pypi/v/napari-imagej.svg?color=green)](https://pypi.org/project/napari-imagej)\n[![Python Version](https://img.shields.io/pypi/pyversions/napari-imagej.svg?color=green)](https://python.org)\n[![Build Status](https://github.com/imagej/napari-imagej/workflows/build/badge.svg)](https://github.com/imagej/napari-imagej/actions)\n[![napari hub](https://img.shields.io/endpoint?url=https://api.napari-hub.org/shields/napari-imagej)](https://napari-hub.org/plugins/napari-imagej)\n\n**napari-imagej** aims to provide access to all [ImageJ2] functionality through the [napari] graphical user interface. It builds on the foundation of [PyImageJ], a project allowing ImageJ2 access from Python.\n\n**With napari-imagej, you can access:**\n\n1. The napari-imagej widget, providing *headless access* to:\n   * [ImageJ2 Commands] - 100+ image processing algorithms\n   * [ImageJ Ops] - 500+ *functional* image processing algorithms\n   * [SciJava Scripts] - migrated from Fiji or ImageJ2, or written yourself!\n2. The ImageJ user interface, providing access to *the entire ImageJ ecosystem* within napari.\n\nSee the [project roadmap](https://github.com/orgs/imagej/projects/2) for future directions.\n\n## Getting Started\n\nLearn more about the project [here](https://napari-imagej.readthedocs.io/en/latest/), or jump straight to [installation](https://napari-imagej.readthedocs.io/en/latest/Install.html)!\n\n## Usage\n\n* [Image Processing with ImageJ Ops](https://napari-imagej.readthedocs.io/en/latest/examples/ops.html)\n* [Puncta Segmentation with SciJava Scripts](https://napari-imagej.readthedocs.io/en/latest/examples/scripting.html)\n\n## Troubleshooting\n\nThe [FAQ](https://napari-imagej.readthedocs.io/en/latest/Troubleshooting.html) outlines solutions to many common issues.\n\nFor more obscure issues, feel free to reach out on [forum.image.sc](https://forum.image.sc).\n\nIf you've found a bug, please [file an issue]!\n\n## Contributing\n\nWe welcome any and all contributions made onto the napari-imagej repository.\n\nDevelopment discussion occurs on the [Image.sc Zulip chat](https://imagesc.zulipchat.com/#narrow/stream/328100-scyjava).\n\nFor technical details involved with contributing, please see [here](https://napari-imagej.readthedocs.io/en/latest/Development.html)\n\n## License\n\nDistributed under the terms of the [BSD-2] license,\n\"napari-imagej\" is free and open source software.\n\n## Citing\n\n_napari-imagej: ImageJ ecosystem access from napari_, Nature Methods, 2023 Aug 18\n\nDOI: [10.1038/s41592-023-01990-0](https://doi.org/10.1038/s41592-023-01990-0)\n\n[Apache Software License 2.0]: https://www.apache.org/licenses/LICENSE-2.0\n[black]: https://github.com/psf/black\n[BSD-2]: https://opensource.org/licenses/BSD-2-Clause\n[Cookiecutter]: https://github.com/audreyr/cookiecutter\n[cookiecutter-napari-plugin]: https://github.com/napari/cookiecutter-napari-plugin\n[conda]: https://docs.conda.io/\n[conda-forge]: https://conda-forge.org/\n[file an issue]: https://github.com/imagej/napari-imagej/issues\n[flake8]: https://flake8.pycqa.org/\n[GNU GPL v3.0]: https://www.gnu.org/licenses/gpl-3.0.txt\n[GNU LGPL v3.0]: https://www.gnu.org/licenses/lgpl-3.0.txt\n[ImageJ2]: https://imagej.net/software/imagej2\n[ImageJ2 Commands]: https://github.com/imagej/imagej-plugins-commands\n[ImageJ Ops]: https://imagej.net/libs/imagej-ops\n[install mamba]: https://mamba.readthedocs.io/en/latest/installation.html\n[isort]: https://pycqa.github.io/isort/\n[mamba]: https://mamba.readthedocs.io/\n[MIT]: https://opensource.org/licenses/MIT\n[Mozilla Public License 2.0]: https://www.mozilla.org/media/MPL/2.0/index.txt\n[napari]: https://github.com/napari/napari\n[napari hub]: https://www.napari-hub.org/\n[npe2]: https://github.com/napari/npe2\n[pip]: https://pypi.org/project/pip/\n[pull request]: https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/proposing-changes-to-your-work-with-pull-requests/about-pull-requests\n[PyImageJ]: https://github.com/imagej/pyimagej\n[PyPI]: https://pypi.org/\n[SciJava Scripts]: https://imagej.net/scripting\n[tox]: https://tox.readthedocs.io/\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimagej%2Fnapari-imagej","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fimagej%2Fnapari-imagej","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimagej%2Fnapari-imagej/lists"}