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napari-clusters-plotter

A napari plugin for clustering objects according to their properties.

https://github.com/biapol/napari-clusters-plotter

Science Score: 85.0%

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
    Found 3 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    1 of 13 committers (7.7%) from academic institutions
  • ✓
    Institutional organization owner
    Organization biapol has institutional domain (physics-of-life.tu-dresden.de)
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (11.8%) to scientific vocabulary

Keywords

clustering napari-plugin plotting python software

Keywords from Contributors

napari image-analysis energy-system-model
Last synced: 6 months ago · JSON representation ·

Repository

A napari plugin for clustering objects according to their properties.

Basic Info
Statistics
  • Stars: 87
  • Watchers: 9
  • Forks: 10
  • Open Issues: 41
  • Releases: 26
Topics
clustering napari-plugin plotting python software
Created over 4 years ago · Last pushed 6 months ago
Metadata Files
Readme Contributing License Citation

README.md

napari-clusters-plotter

License PyPI Python Version Anaconda-Server Badge tests codecov pre-commit Anaconda-Server Badge napari hub DOI

A napari-plugin for clustering objects according to their properties.

Documentation

The documentation for the napari-clusters-plotter is available under the above link.

License

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

Acknowledgements

This project was supported by the Deutsche Forschungsgemeinschaft under Germany’s Excellence Strategy – EXC2068 - Cluster of Excellence "Physics of Life" of TU Dresden. This project has been made possible in part by grant number 2021-240341 (Napari plugin accelerator grant) from the Chan Zuckerberg Initiative DAF, an advised fund of the Silicon Valley Community Foundation.

Issues

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

Owner

  • Name: Bio-image Analysis group at the DFG Cluster of Excellence "Physics of Life" at TU Dresden
  • Login: BiAPoL
  • Kind: organization
  • Location: Dresden

Citation (CITATION.cff) 

cff-version: 1.2.0
title: napari-clusters-plotter
message: "If you use this software, please cite it using the metadata from this file."
abstract: "A plugin to use with napari for clustering objects according to their properties."
type: software
authors:
  - given-names: Laura
    family-names: Zigutyte
    email: zigutyte@gmail.com
  - given-names: Ryan
    family-names: Savill
  - given-names: Johannes
    family-names: Müller
  - given-names: Marcelo
    family-names: Zoccoler
  - given-names: Thorsten
    family-names: Wagner
    email: thorsten.wagner@mpi-dortmund.mpg.de
  - given-names: Robert
    family-names: Haase
    email: robert.haase@tu-dresden.de
version: 0.7.1
date-released: 2023-05-01
identifiers:
  - description: This is the collection of archived snapshots of all versions of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.5884657"
  - description: This is the archived snapshot of version 0.7.1 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.7882626"
  - description: This is the archived snapshot of version 0.7.0 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.7879227"
  - description: This is the archived snapshot of version 0.6.2 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.7745633"
  - description: This is the archived snapshot of version 0.6.1 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.7646982"
  - description: This is the archived snapshot of version 0.5.1 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.6620442"
  - description: This is the archived snapshot of version 0.5.0 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.6520216"
  - description: This is the archived snapshot of version 0.4.0 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.6483425"
  - description: This is the archived snapshot of version 0.3.0 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.6412049"
  - description: This is the archived snapshot of version 0.2.2 of napari-clusters-plotter
    type: doi
    value: "10.5281/zenodo.5884658"
license: BSD-3-Clause
repository-code: https://github.com/BiAPoL/napari-clusters-plotter

GitHub Events

Total
  • Create event: 55
  • Release event: 4
  • Issues event: 46
  • Watch event: 7
  • Delete event: 58
  • Issue comment event: 125
  • Push event: 244
  • Pull request review comment event: 25
  • Pull request review event: 24
  • Pull request event: 110
  • Fork event: 2
Last Year
  • Create event: 55
  • Release event: 4
  • Issues event: 46
  • Watch event: 7
  • Delete event: 58
  • Issue comment event: 125
  • Push event: 244
  • Pull request review comment event: 25
  • Pull request review event: 24
  • Pull request event: 110
  • Fork event: 2

Committers

Last synced: about 2 years ago

All Time
  • Total Commits: 913
  • Total Committers: 13
  • Avg Commits per committer: 70.231
  • Development Distribution Score (DDS): 0.643
Past Year
  • Commits: 350
  • Committers: 9
  • Avg Commits per committer: 38.889
  • Development Distribution Score (DDS): 0.7
Top Committers
Name Email Commits
Laura Žigutytė z****e@g****m 326
pre-commit-ci[bot] 6****] 162
Cryaaa r****l@w****e 125
Robert Haase h****f 77
thorstenwagner t****1@p****e 63
Johannes Müller 3****r 59
Marcelo Zoccoler m****c@g****m 37
Ryan Savill 6****a 30
Stefan Hahmann s****n@t****e 20
Mara Lampert 9****u 6
Laura Žigutytė 5****u 5
Johannes Müller j****8@h****e 2
Lucas Ariel Saavedra 4****3 1
Committer Domains (Top 20 + Academic)
hotmail.de: 1 tu-dresden.de: 1 posteo.de: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 127
  • Total pull requests: 223
  • Average time to close issues: 6 months
  • Average time to close pull requests: 21 days
  • Total issue authors: 17
  • Total pull request authors: 11
  • Average comments per issue: 1.83
  • Average comments per pull request: 2.09
  • Merged pull requests: 176
  • Bot issues: 0
  • Bot pull requests: 9
Past Year
  • Issues: 38
  • Pull requests: 123
  • Average time to close issues: 10 days
  • Average time to close pull requests: 7 days
  • Issue authors: 6
  • Pull request authors: 6
  • Average comments per issue: 0.87
  • Average comments per pull request: 0.89
  • Merged pull requests: 89
  • Bot issues: 0
  • Bot pull requests: 1
View more stats
Top Authors
Issue Authors
  • zoccoler (37)
  • jo-mueller (26)
  • haesleinhuepf (20)
  • lazigu (12)
  • thorstenwagner (10)
  • Cryaaa (8)
  • stefanhahmann (4)
  • ziw-liu (2)
  • cwetzker (1)
  • rhornb (1)
  • will-moore (1)
  • goanpeca (1)
  • Erwan67 (1)
  • Michael-L-Miller (1)
  • Nal44 (1)
Pull Request Authors
  • jo-mueller (135)
  • zoccoler (29)
  • lazigu (22)
  • thorstenwagner (19)
  • Cryaaa (12)
  • pre-commit-ci[bot] (12)
  • haesleinhuepf (9)
  • stefanhahmann (8)
  • ClementCaporal (3)
  • tsmejkal (2)
  • marabuuu (1)
Top Labels
Issue Labels
enhancement (42) bug (25) on hold (4) hackathon (3) documentation (3) UI/UX (3) good first issue (2) low priority (2) test (2) duplicate (1) installation (1)
Pull Request Labels
enhancement (52) bug (29) documentation (23) test (4) work in progress (2) UI/UX (2) hackathon (1)

Packages

  • Total packages: 2
  • Total downloads:
    • pypi 413 last-month
  • Total dependent packages: 6
    (may contain duplicates)
  • Total dependent repositories: 1
    (may contain duplicates)
  • Total versions: 30
  • Total maintainers: 5
pypi.org: napari-clusters-plotter

A plugin to use with napari for clustering objects according to their properties

  • Documentation: https://github.com/BiAPoL/napari-clusters-plotter
  • License: Copyright (c) 2022, DFG Cluster of Excellence "Physics of Life" TU Dresden: Robert Haase, Laura Zigutyte, Marcello Zoccoler, Ryan Savill, Johannes Müller and Max Planck Institute of Molecular Physiology Dortmund: Thorsten Wagner All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of napari-clusters-plotter nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
  • Latest release: 0.10.0
    published 7 months ago
  • Versions: 24
  • Dependent Packages: 4
  • Dependent Repositories: 1
  • Downloads: 413 Last month
Rankings
Dependent packages count: 1.9%
Stargazers count: 8.6%
Downloads: 9.5%
Average: 10.8%
Forks count: 12.5%
Dependent repos count: 21.5%
Maintainers (5)
haesleinhuepf Cryaaa zigutyte jm_mightypirate zoccoler
Last synced: 6 months ago
conda-forge.org: napari-clusters-plotter
  • Versions: 6
  • Dependent Packages: 2
  • Dependent Repositories: 0
Rankings
Dependent packages count: 19.5%
Dependent repos count: 34.0%
Average: 35.0%
Stargazers count: 38.8%
Forks count: 47.7%
Last synced: 6 months ago

Dependencies

requirements.txt pypi
  • docutils *
  • hdbscan *
  • magicgui *
  • matplotlib *
  • napari *
  • numba *
  • numpy >=1.21
  • pandas *
  • pip *
  • pre-commit *
  • pytest *
  • pytz *
  • qtpy *
  • scikit-image *
  • scikit-learn *
  • tornado *
  • umap-learn *
  • wheel *
.github/workflows/test_and_deploy.yml actions
  • actions/checkout v2 composite
  • actions/setup-python v2 composite
  • codecov/codecov-action v2 composite
  • conda-incubator/setup-miniconda v2.0.0 composite
setup.py pypi