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napari-filament-annotator

Annotation of filaments and other curvilinear structures in 3D.

https://github.com/amedyukhina/napari-filament-annotator

Science Score: 54.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (15.9%) to scientific vocabulary
Last synced: 7 months ago · JSON representation ·

Repository

Annotation of filaments and other curvilinear structures in 3D.

Basic Info
  • Host: GitHub
  • Owner: amedyukhina
  • License: other
  • Language: Python
  • Default Branch: main
  • Homepage:
  • Size: 11.1 MB
Statistics
  • Stars: 12
  • Watchers: 2
  • Forks: 1
  • Open Issues: 0
  • Releases: 3
Created over 3 years ago · Last pushed over 2 years ago
Metadata Files
Readme License Citation

README.md

3D Filament Annotator

DOI License Apache Software License 2.0 PyPI Python Version tests codecov napari hub

3D Filament Annotator is a tool for annotating filaments and other curvilinear structures in 3D. The 3D annotation is done by annotating the filament in two different projections, calculating intersection, and refining the filament position with active contours.

demo

Installation

Install napari

pip install napari[all]

Install the filament annotator

pip install git+https://github.com/amedyukhina/napari-filament-annotator.git

Usage

For detailed usage instructions, please refer to the usage tutorial.

Contributing

Contributions are very welcome both with regard to plugin functionality, and tips on using it and setting parameters.

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 Apache Software License 2.0 license, "napari-filament-annotator" is free and open source software

Dependencies

Issues

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

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

Owner

  • Name: Anna Medyukhina
  • Login: amedyukhina
  • Kind: user
  • Location: Planet Earth
  • Company: ISeeChange

Citation (CITATION.cff) 

cff-version: 1.1.0
message: "If you use this software, please cite it as below."
authors:
  - family-names: Medyukhina
    given-names: Anna
    orcid: https://orcid.org/0000-0001-5268-713X
title: amedyukhina/napari-filament-annotator: Version 0.1
version: v0.1
date-released: 2022-10-04

GitHub Events

Total
  • Watch event: 1
Last Year
  • Watch event: 1

Committers

Last synced: about 3 years ago

All Time
  • Total Commits: 77
  • Total Committers: 2
  • Avg Commits per committer: 38.5
  • Development Distribution Score (DDS): 0.026
Top Committers
Name Email Commits
Anna Medyukhina a****a@g****m 75
Anna Medyukhina 3****a@u****m 2

Issues and Pull Requests

Last synced: 8 months ago

All Time
  • Total issues: 1
  • Total pull requests: 0
  • Average time to close issues: 5 days
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • chrishavlin (1)
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 19 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 3
  • Total maintainers: 1
pypi.org: napari-filament-annotator

Annotation of filaments / curvilinear structures in 3D

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 19 Last month
Rankings
Dependent packages count: 6.6%
Stargazers count: 18.6%
Average: 21.7%
Forks count: 23.2%
Downloads: 29.3%
Dependent repos count: 30.6%
Maintainers (1)
amedyukhina
Last synced: 8 months ago

Dependencies

.github/workflows/test_and_deploy.yml actions
  • GabrielBB/xvfb-action v1 composite
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
  • codecov/codecov-action v2 composite
  • tlambert03/setup-qt-libs v1 composite
pyproject.toml pypi