pangeo-fish

https://github.com/pangeo-fish/pangeo-fish

Science Score: 67.0%

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 2 DOI reference(s) in README
✓
Academic publication links
Links to: zenodo.org
○
Academic email domains
○
Institutional organization owner
○
JOSS paper metadata
○
Scientific vocabulary similarity
Low similarity (15.1%) to scientific vocabulary

Last synced: 6 months ago · JSON representation ·

Repository

Basic Info

Host: GitHub
Owner: pangeo-fish
License: gpl-3.0
Language: Python
Default Branch: main
Homepage: https://pangeo-fish.readthedocs.io
Size: 11.2 MB

Statistics

Stars: 2
Watchers: 3
Forks: 4
Open Issues: 33
Releases: 4

Created over 2 years ago · Last pushed 6 months ago

Metadata Files

Readme Contributing License Citation

Pangeo-Fish 🐟

Pangeo-Fish is an open, community-driven project designed to leverage the power of the Pangeo ecosystem specifically for fish biologging data analysis and related oceanographic research. The project facilitates scalable, reproducible, and collaborative research by integrating biologging data with environmental datasets using cloud-native technologies.

🌊 Project Goals

Simplify Biologging Data Analysis: Integrate and streamline analyses of diverse fish biologging datasets with oceanographic and environmental data.
Leverage Cloud Infrastructure: Utilize Pangeo technologies such as Xarray, Dask, and Jupyter to perform large-scale, efficient computations.
Promote Collaboration: Foster an inclusive community where researchers and developers can share expertise, resources, and innovative tools.

🚀 Quick Start

Install directly from PyPI:

bash pip install pangeo-fish

Or set up the development environment:

bash git clone https://github.com/pangeo-fish/pangeo-fish.git cd pangeo-fish conda env create -n pangeo-fish -f environment.yml conda activate pangeo-fish jupyter lab

Explore example notebooks located in the notebooks directory.

📖 Documentation

Complete documentation, including guides, tutorials, and examples, is available on Read the Docs.

Topics include:

Data ingestion and preprocessing
Integration of biologging and environmental datasets
Scalable computing with Dask and Xarray
Visualization techniques for biologging data

🤝 Contributing

We warmly welcome contributions! You can contribute by:

Reporting bugs and suggesting enhancements via GitHub Issues.
Joining discussions on our GitHub Discussions.
Submitting code improvements or new features through Pull Requests.

For detailed guidelines, please refer to our contribution guidelines.

📜 License

Pangeo-Fish is distributed under the BSD 3-Clause License.

🌐 Join us to advance open, scalable science through biologging data analysis!

Acknowledgements

T Odaka, JM Delouis and J Magin are supported by the CNES Appel, a projet R&T R-S23/DU-0002-025-01.
T Odaka, JM Delouis and M Woillez are supported by the TAOS project funded by the IFREMER via the AMII OCEAN 2100 programme.
Q Mazouni, M Woillez, A Fouilloux and T Odaka are supported by Global Fish Tracking System (GFTS), a Destination Earth use case procured and funded by ESA (SA Contract No. 4000140320/23/I-NS, DESTINATION EARTH USE CASES - DESP USE CASES - ROUND (YEAR 2023))
M Woillez and T Odaka are supported by Digital Twin of the Ocean - Animal Tracking (DTO Track), a European project that aims to create a digital twin of the North Sea using animal tracking data and funded by the Sustainable Blue Economy Partnership (ANR-24-SBEP-0001)

Owner

Name: pangeo-fish
Login: pangeo-fish
Kind: organization

Repositories: 1
Profile: https://github.com/pangeo-fish

Citation (CITATION.cff)

cff-version: 1.2.0
message: "If you use this software, please cite it using these metadata."
title: pangeo-fish
abstract: "Pangeo-Fish is an open, community-driven project designed to leverage the power of the Pangeo ecosystem specifically for fish biologging data analysis and related oceanographic research. The project facilitates scalable, reproducible, and collaborative research by integrating biologging data with environmental datasets using cloud-native technologies."
type: software
authors:
  - family-names: "Magin"
    given-names: "Justus"
    orcid: "https://orcid.org/0000-0002-4254-8002"
  - family-names: "Mazouni"
    given-names: "Quentin"
    orcid: "https://orcid.org/0009-0003-3519-5514"
  - family-names: "Cap"
    given-names: "Etienne"
    orcid: "https://orcid.org/0009-0007-0360-0692"
  - family-names: "Gonse"
    given-names: "Marine"
    orcid: "https://orcid.org/0000-0002-5378-8482"
  - family-names: "Woillez"
    given-names: "Mathieu"
    orcid: "https://orcid.org/0000-0002-1032-2105"
  - family-names: "Fouilloux"
    given-names: "Anne"
    orcid: "https://orcid.org/0000-0002-1784-2920"
  - family-names: "Delouis"
    given-names: "Jean-Marc"
    orcid: "https://orcid.org/0000-0002-0713-1658"
  - family-names: "Odaka"
    given-names: "Tina"
    orcid: "https://orcid.org/0000-0002-1500-0156"
version: 2025.03.3
date-released: "2025-03-31"
license: GPL-3.0
repository-code: "https://github.com/pangeo-fish/pangeo-fish"
url: "https://pangeo-fish.readthedocs.io"
keywords:
  - biologging
  - oceanography
  - Pangeo
  - Xarray
  - Zarr
  - Dask
identifiers:
  - type: doi
    value: 10.5281/zenodo.15110143

GitHub Events

Total

Create event: 14
Release event: 5
Issues event: 34
Watch event: 3
Delete event: 9
Member event: 3
Issue comment event: 62
Push event: 68
Pull request review comment event: 24
Pull request review event: 37
Pull request event: 57
Fork event: 1

Last Year

Create event: 14
Release event: 5
Issues event: 34
Watch event: 3
Delete event: 9
Member event: 3
Issue comment event: 62
Push event: 68
Pull request review comment event: 24
Pull request review event: 37
Pull request event: 57
Fork event: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 34
Total pull requests: 102
Average time to close issues: 3 months
Average time to close pull requests: 7 days
Total issue authors: 6
Total pull request authors: 6
Average comments per issue: 1.76
Average comments per pull request: 0.98
Merged pull requests: 81
Bot issues: 0
Bot pull requests: 12

Past Year

Issues: 30
Pull requests: 102
Average time to close issues: 28 days
Average time to close pull requests: 7 days
Issue authors: 6
Pull request authors: 6
Average comments per issue: 1.63
Average comments per pull request: 0.98
Merged pull requests: 81
Bot issues: 0
Bot pull requests: 12

View more stats

Top Authors

Issue Authors

tinaok (16)
QuentinMaz (5)
capetienne (4)
keewis (4)
rsignell (3)
platipodium (2)

Pull Request Authors

QuentinMaz (45)
capetienne (20)
keewis (15)
tinaok (10)
pre-commit-ci[bot] (10)
dependabot[bot] (2)

Top Labels

Issue Labels

enhancement (4) bug (4) documentation (2) invalid (1)

Pull Request Labels

dependencies (2) github_actions (2) skip-ci (2)

Packages

Total packages: 1
Total downloads:
- pypi 17 last-month

Total dependent packages: 0
Total dependent repositories: 0
Total versions: 4
Total maintainers: 3

pypi.org: pangeo-fish

Utilities for fish geolocation

Homepage: https://github.com/pangeo-fish/pangeo-fish
Documentation: https://pangeo-fish.readthedocs.io/
License: MIT
Latest release: 2025.3.3
published 11 months ago

Versions: 4
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 17 Last month

Rankings

Dependent packages count: 9.5%

Average: 31.6%

Dependent repos count: 53.7%

Maintainers (3)

keewis tinaok Nireza