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diff_classifier

diff_classifier: Parallelization of multi-particle tracking video analyses - Published in JOSS (2019)

https://github.com/Nance-Lab/diff_classifier

Science Score: 46.0%

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

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ✓
    Academic publication links
    Links to: joss.theoj.org, zenodo.org
  • ✓
    Committers with academic emails
    2 of 6 committers (33.3%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (12.4%) to scientific vocabulary

Keywords from Contributors

neuroimaging neuroscience mesh

Scientific Fields

Mathematics Computer Science - 84% confidence
Last synced: 7 months ago · JSON representation

Repository

This project aims to take existing analyses of nanoparticle diffusion that I have worked on previously and expand the analysis to additional features.

Basic Info
  • Host: GitHub
  • Owner: Nance-Lab
  • License: mit
  • Language: Python
  • Default Branch: master
  • Size: 132 MB
Statistics
  • Stars: 4
  • Watchers: 4
  • Forks: 15
  • Open Issues: 7
  • Releases: 2
Created over 8 years ago · Last pushed almost 2 years ago
Metadata Files
Readme Contributing License

README.md

diff_classifier

status Tests codecov Scrutinizer Code Quality Average time to resolve an issue Percentage of issues still open GitHub license DOI

diff_classifier is a python package for analyzing and visualizing 2D nanoparticle trajectory data from multi-particle tracking analysis. The package utilizes the ImageJ package Trackmate for tracking analysis, and Cloudknot for parallelization on AWS.

diff_classifier

This is the diff_classifier development site. You can view the source code and file new issues. If you are just getting started, you should look at the diff_classifier documentation

Contributing

Contributions are welcome! Diff_classifier is open source, built on open source, and we love any input, suggestions, and problems.

Guidelines for contributing are included for your convenience.

Credits

This package was created with shablona.

Guidelines for contributions were based off the CONTRIBUTIONS file developed by Adam Richie-Halford.

Owner

  • Name: Nance Lab
  • Login: Nance-Lab
  • Kind: organization
  • Email: nancelab@uw.edu
  • Location: Seattle, Washington

Home to all projects and repositories from the Nance Lab at the University of Washington. (PI: Elizabeth Nance)

GitHub Events

Total
Last Year

Committers

Last synced: 8 months ago

All Time
  • Total Commits: 420
  • Total Committers: 6
  • Avg Commits per committer: 70.0
  • Development Distribution Score (DDS): 0.167
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Chad Curtis c****7@u****u 350
Nels Schimek n****m@u****u 38
arokem a****m@g****m 18
Scott Sievert s****t 8
dependabot[bot] 4****] 5
zeelabuser z****r@z****l 1
Committer Domains (Top 20 + Academic)
uw.edu: 2

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 19
  • Total pull requests: 36
  • Average time to close issues: 13 days
  • Average time to close pull requests: 2 months
  • Total issue authors: 3
  • Total pull request authors: 5
  • Average comments per issue: 3.68
  • Average comments per pull request: 0.5
  • Merged pull requests: 25
  • Bot issues: 0
  • Bot pull requests: 8
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
  • stsievert (11)
  • ccurtis7 (6)
  • hugopontess (2)
Pull Request Authors
  • dependabot[bot] (12)
  • nlsschim (10)
  • arokem (9)
  • ccurtis7 (8)
  • stsievert (4)
Top Labels
Issue Labels
Pull Request Labels
dependencies (12)

Dependencies

notebooks/sensitivity/cloudknot_docker_sensitivity_it_idmys5cl/Dockerfile docker
  • arokem/python3-fiji 0.3 build
notebooks/sensitivity/cloudknot_docker_sensitivity_it_k3ng5_13/Dockerfile docker
  • arokem/python3-fiji 0.3 build
notebooks/sensitivity/cloudknot_docker_sensitivity_it_idmys5cl/requirements.txt pypi
  • boto3 ==1.5.28
  • cloudpickle ==0.5.2
  • matplotlib ==2.2.0
  • numpy ==1.22.0
  • pandas ==0.22.0
  • scipy ==1.0.0
  • shapely ==1.6.4.post1
notebooks/sensitivity/cloudknot_docker_sensitivity_it_k3ng5_13/requirements.txt pypi
  • boto3 ==1.5.28
  • cloudpickle ==0.5.2
  • matplotlib ==2.2.0
  • numpy ==1.22.0
  • pandas ==0.22.0
  • scipy ==1.0.0
  • shapely ==1.6.4.post1
requirements.txt pypi
  • Shapely *
  • boto3 *
  • coverage ==4.5.2
  • coveralls *
  • fijibin *
  • imglyb ==2.0.1
  • ipywidgets ==7.7.0
  • itk ==5.2.0
  • itkwidgets ==0.32.0
  • jgo ==1.0.3
  • jpype1 ==1.3.0
  • jupyter-contrib-nbextensions ==0.5.1
  • napari ==0.4.15
  • notebook ==6.4.11
  • numpy ==1.22.3
  • numpydoc *
  • pandas *
  • pyimagej ==1.2.1
  • pytest ==4.1.0
  • scikit-image ==0.19.2
  • scyjava ==1.5.1
  • seaborn *
  • shapely *
  • sklearn *