phys2bids
Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!
Science Score: 59.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓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 -
✓Committers with academic emails
8 of 34 committers (23.5%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (9.0%) to scientific vocabulary
Keywords
Keywords from Contributors
Repository
Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!
Basic Info
- Host: GitHub
- Owner: physiopy
- License: apache-2.0
- Language: Python
- Default Branch: master
- Homepage: https://phys2bids.readthedocs.io
- Size: 57.7 MB
Statistics
- Stars: 66
- Watchers: 6
- Forks: 47
- Open Issues: 57
- Releases: 32
Topics
Metadata Files
README.md
phys2bids
<!-- ALL-CONTRIBUTORS-BADGE:END -->
phys2bids is a python3 library meant to format physiological files in BIDS.
At the moment, it supports:
- .acq, .txt, and .mat AcqKnowledge format (BIOPAC)
- .txt and .mat LabChart format (ADInstruments)
- .smr Spike2 format (CED)
- GE MRI file format (GE)
We want to offer as much support as possible! If you have a file format that you want to see added, open an issue about it!
If you use
phys2bidsin your work, please support it by citing the zenodo DOI of the version you used. You can find the latest version hereWe also support gathering all relevant citations via DueCredit.
Read the latest documentation for more information on phys2bids!
Shortcuts: - Requirements - Installation - Usage - How to use phys2bids - Contributing to phys2bids - Developer installation - Contributor guide - Code of Conduct - Developer calls calendar
Tested OSs
All versions until 2.6.2 were tested on Linux and Windows. However, starting from version 2.7 onwards we had to drop Windows testing. The reason for this is related to the cost of running such tests: for each Windows test, we can run up to 8 tests on Linux instead. Partial Windows testing might be reintroduced in future releases.
Hence, while we cannot ensure that phys2bids will run on Windows or MacOS/iOS, we don't see any reason it shouldn't. Besides, it will run on Linux Subsystems.
We apologise for any discomfort.
Contributors ✨
We're always looking for code contributors, but any suggestion/bug report is welcome! Feel free to open issues!
This project follows the all-contributors specification. Contributions of any kind welcome!
Thanks goes to these wonderful people (emoji key): <!-- ALL-CONTRIBUTORS-LIST:START - Do not remove or modify this section --> <!-- prettier-ignore-start --> <!-- markdownlint-disable -->
License
Copyright 2019-2020, The Phys2BIDS community.
Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.
Owner
- Name: The physiopy community
- Login: physiopy
- Kind: organization
- Email: s.moia.research@gmail.com
- Repositories: 6
- Profile: https://github.com/physiopy
A set of tools to operate physiological files in MRI setups
GitHub Events
Total
- Issues event: 2
- Watch event: 2
- Delete event: 4
- Issue comment event: 31
- Push event: 15
- Pull request event: 6
- Pull request review event: 2
- Create event: 4
Last Year
- Issues event: 2
- Watch event: 2
- Delete event: 4
- Issue comment event: 31
- Push event: 15
- Pull request event: 6
- Pull request review event: 2
- Create event: 4
Committers
Last synced: about 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Vicente Ferrer | v****r@b****u | 947 |
| Stefano Moia | s****a@b****u | 551 |
| Eneko Uruñuela | e****u@g****m | 183 |
| François Lespinasse | f****6@g****m | 97 |
| smoia | s****h@g****m | 87 |
| Ross Markello | r****o@g****m | 48 |
| allcontributors[bot] | 4****] | 44 |
| nwd2918 | n****n@t****w | 31 |
| Rachael Stickland | r****d@n****u | 21 |
| Vicente Ferrer | 3****r | 19 |
| nwd2918 | n****n@g****m | 19 |
| Rachael Stickland | 5****k | 19 |
| dombas | d****g@g****m | 11 |
| Apoorva Ayyagari | a****0@u****u | 10 |
| Taylor Salo | t****6@f****u | 10 |
| test | b****d@g****m | 7 |
| Katie Bottenhorn | k****6@f****u | 7 |
| pre-commit-ci[bot] | 6****] | 6 |
| Yaroslav Halchenko | d****n@o****m | 6 |
| Apoorva Ayyagari | 5****A | 5 |
| Daniel Alcalá López | d****p@g****m | 5 |
| Hao-Ting Wang | h****w@g****m | 5 |
| Vittorio Iacovella | v****a@g****m | 4 |
| Merel van der Thiel | m****l@m****l | 4 |
| Kristina Zvolanek | k****k@u****u | 3 |
| BrightMG | m****t@n****u | 2 |
| Molly Bright | 3****G | 2 |
| Inés Chavarría | 7****h | 2 |
| David Romero-Bascones | 5****s | 2 |
| Marcel Zwiers | m****s@g****m | 2 |
| and 4 more... | ||
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 60
- Total pull requests: 67
- Average time to close issues: 7 months
- Average time to close pull requests: 3 months
- Total issue authors: 18
- Total pull request authors: 20
- Average comments per issue: 2.83
- Average comments per pull request: 4.3
- Merged pull requests: 51
- Bot issues: 0
- Bot pull requests: 9
Past Year
- Issues: 3
- Pull requests: 7
- Average time to close issues: N/A
- Average time to close pull requests: about 2 months
- Issue authors: 3
- Pull request authors: 3
- Average comments per issue: 6.67
- Average comments per pull request: 1.14
- Merged pull requests: 3
- Bot issues: 0
- Bot pull requests: 2
Top Authors
Issue Authors
- smoia (31)
- tsalo (4)
- RayStick (3)
- drombas (3)
- yarikoptic (2)
- 62442katieb (2)
- oesteban (2)
- eurunuela (2)
- htwangtw (2)
- vinferrer (2)
- marcelzwiers (1)
- m-miedema (1)
- TomW92 (1)
- me-pic (1)
- dangom (1)
Pull Request Authors
- smoia (20)
- RayStick (11)
- pre-commit-ci[bot] (7)
- vinferrer (6)
- eurunuela (5)
- allcontributors[bot] (4)
- drombas (3)
- tsalo (2)
- yarikoptic (2)
- me-pic (2)
- nw-duncan (2)
- maestroque (1)
- 62442katieb (1)
- marcelzwiers (1)
- afni-dglen (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 2
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Total downloads:
- pypi 266 last-month
- Total docker downloads: 41
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Total dependent packages: 1
(may contain duplicates) -
Total dependent repositories: 2
(may contain duplicates) - Total versions: 28
- Total maintainers: 1
pypi.org: phys2bids
Python library to convert physiological data files into BIDS format
- Homepage: https://github.com/physiopy/phys2bids
- Documentation: https://phys2bids.readthedocs.io/
- License: Apache-2.0
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Latest release: 2.10.0
published almost 3 years ago
Rankings
Maintainers (1)
pypi.org: physiopy
Metapackage for physiopy packages
- Homepage: https://github.com/physiopy/phys2bids
- Documentation: https://physiopy.readthedocs.io/
- License: Apache-2.0
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Latest release: 0.0.1b0
published about 6 years ago
Rankings
Maintainers (1)
Dependencies
- actions/checkout v2 composite
- actions/checkout v2 composite
- actions/setup-python v2 composite
- PyYAML >=5.1,
- matplotlib >=3.1.1,
- numpy >=1.10,<1.24
- actions/checkout v3 composite
- codespell-project/actions-codespell v1 composite