dcm2bids
Reorganising NIfTI files from dcm2niix into the Brain Imaging Data Structure
Science Score: 77.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 4 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
✓Committers with academic emails
2 of 23 committers (8.7%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (15.3%) to scientific vocabulary
Keywords
Keywords from Contributors
Repository
Reorganising NIfTI files from dcm2niix into the Brain Imaging Data Structure
Basic Info
- Host: GitHub
- Owner: UNFmontreal
- License: gpl-3.0
- Language: Python
- Default Branch: master
- Homepage: https://UNFmontreal.github.io/Dcm2Bids/
- Size: 12.3 MB
Statistics
- Stars: 181
- Watchers: 5
- Forks: 84
- Open Issues: 12
- Releases: 19
Topics
Metadata Files
README.md
dcm2bids
Your friendly DICOM converter.
dcm2bids reorganises NIfTI files using dcm2niix into the Brain Imaging Data Structure (BIDS).
Major upgrade with dcm2bids >=3.0.0
⚠️ Breaking changes alert ⚠️
dcm2bids>=3.0.0 is not compatible with config files made for v2.1.9 and below.
In order to develop dcm2bids new features we had to rewrite some of its code.
Since v3.0.0, dcm2bids has become more powerful and more flexible while reducing the burden of creating config files. Porting your config file should be relatively easy by following the How-to upgrade page.
If you have any issues with it don't hesitate to report it on Neurostars.
Scope
dcm2bids is a community-centered project. It aims to be a friendly,
easy-to-use tool to convert your dicoms. Our main goal is to make the dicom
to BIDS conversion as effortless as possible. Even if in the near future
more advanced features will be added, we'll keep the focus on your day
to day use case without complicating anything. That's the promise of the dcm2bids project.
Documentation
Please take a look at the documentation to:
- Learn about bids with some dataset examples
- Install dcm2bids
- Use docker and Apptainer/Singularity
- Follow the tutorials
- Seek for more advanced usage
Issues and Questions
We work hard to make sure dcm2bids is robust and we welcome comments and questions to make sure it meets your use case! Here's our preferred workflow:
If you have a usage question :raising_hand:, we encourage you to post your question on Neurostars with dcm2bids as an optional tag. The tag is really important because Neurostars will notify the
dcm2bidsteam only if the tag is present. Neurostars is a question and answer forum for neuroscience researchers, infrastructure providers and software developers, and free to access.
Before posting your question, you may want to first browse through questions that were tagged with the dcm2bids tag. If your question persists, feel free to comment on previous questions or ask your own question.If you think you've found a bug :bug:, please open an issue on our repository. To do this, you'll need a GitHub account. See our contributing guide for more details.
Please cite dcm2bids
If you use dcm2bids in your research or as part of your developments, please always cite the reference below.
APA
Boré, A., Guay, S., Bedetti, C., Meisler, S., & GuenTher, N. (2023). Dcm2Bids (Version 3.1.1) [Computer software]. https://doi.org/10.5281/zenodo.8436509
BibTeX
@software{Bore_Dcm2Bids_2023,
author = {Boré, Arnaud and Guay, Samuel and Bedetti, Christophe and Meisler, Steven and GuenTher, Nick},
doi = {10.5281/zenodo.8436509},
month = aug,
title = {{Dcm2Bids}},
url = {https://github.com/UNFmontreal/Dcm2Bids},
version = {3.1.1},
year = {2023}
Owner
- Name: UNF
- Login: UNFmontreal
- Kind: organization
- Location: 4545, Chemin Queen-Mary Montréal (Québec) H3W 1W4
- Website: http://unf-montreal.ca/
- Twitter: UNF_montreal
- Repositories: 6
- Profile: https://github.com/UNFmontreal
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Boré"
given-names: "Arnaud"
orcid: "https://orcid.org/0000-0002-4822-1211"
- family-names: "Guay"
given-names: "Samuel"
orcid: "https://orcid.org/0000-0001-6990-839X"
- family-names: "Bedetti"
given-names: "Christophe"
orcid: "https://orcid.org/0000-0002-1443-8922"
- family-names: "Meisler"
given-names: "Steven"
- family-names: "Guenther"
given-names: "Nick"
title: "Dcm2Bids"
version: "3.1.1"
doi: 10.5281/zenodo.8436509
date-released: 2023-10-12
url: "https://github.com/UNFmontreal/Dcm2Bids"
GitHub Events
Total
- Issues event: 15
- Watch event: 18
- Delete event: 3
- Issue comment event: 18
- Push event: 13
- Pull request event: 19
- Pull request review event: 2
- Fork event: 4
- Create event: 6
Last Year
- Issues event: 15
- Watch event: 18
- Delete event: 3
- Issue comment event: 18
- Push event: 13
- Pull request event: 19
- Pull request review event: 2
- Fork event: 4
- Create event: 6
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Arnaud Bore | a****e@g****m | 188 |
| Samuel Guay | s****y@u****a | 90 |
| Christophe Bedetti | c****i@u****a | 81 |
| Christophe Bedetti | c****i@g****m | 36 |
| Arnaud Bore | a****e@g****m | 25 |
| Christophe Bedetti | c****i@c****a | 17 |
| Johan Carlin | j****n@g****m | 9 |
| Alexandre D'Astous | p****i@h****m | 8 |
| dependabot[bot] | 4****] | 6 |
| Nick | n****k@k****a | 6 |
| Nick | n****e@u****a | 5 |
| Steven Meisler | s****r@g****u | 4 |
| HackMD | n****y@h****o | 4 |
| Remi Gau | r****u@h****m | 3 |
| Michael Joseph | j****2@g****m | 3 |
| Yaroslav Halchenko | d****n@o****m | 2 |
| Jason A. Staph | j****h@s****s | 2 |
| Keith Callenberg | k****g@g****m | 1 |
| Alexandre Routier | a****r@g****m | 1 |
| Erik Kastman | e****n@g****m | 1 |
| Hrvoje Stojic | h****c@p****m | 1 |
| GMerakis | 7****s | 1 |
| Isla Staden | i****n@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 110
- Total pull requests: 153
- Average time to close issues: 11 months
- Average time to close pull requests: 2 months
- Total issue authors: 68
- Total pull request authors: 21
- Average comments per issue: 2.14
- Average comments per pull request: 0.8
- Merged pull requests: 120
- Bot issues: 0
- Bot pull requests: 31
Past Year
- Issues: 12
- Pull requests: 21
- Average time to close issues: about 1 month
- Average time to close pull requests: 11 days
- Issue authors: 9
- Pull request authors: 4
- Average comments per issue: 1.25
- Average comments per pull request: 0.1
- Merged pull requests: 11
- Bot issues: 0
- Bot pull requests: 10
Top Authors
Issue Authors
- SamGuay (15)
- kousu (10)
- arnaudbore (7)
- jcohenadad (6)
- Kang1448 (2)
- juliam98 (2)
- po09i (2)
- 1-w (2)
- wasciutto (2)
- Arshitha (2)
- smeisler (2)
- ericearl (2)
- Remi-Gau (2)
- colIapse (1)
- seaguldee (1)
Pull Request Authors
- arnaudbore (60)
- dependabot[bot] (36)
- SamGuay (35)
- scott-huberty (8)
- joey-scanga (4)
- kousu (3)
- smeisler (3)
- Remi-Gau (2)
- sbash64 (2)
- yarikoptic (2)
- andrewrosss (1)
- GMerakis (1)
- keithcallenberg (1)
- 1-w (1)
- jstaph (1)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
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