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bids-standard
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Description

Collection of tutorials, wikis, and templates to get you started with creating BIDS compliant datasets

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Contributors list

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Welcome to the BIDS Starter Kit

:blue_book::file_folder::closed_book::open_file_folder::green_book::open_file_folder::blue_book::open_file_folder::orange_book::file_folder::blue_book:
How to get started with the Brain Imaging Data Structure
A community-curated collection of tutorials, wikis, and templates to get you started with creating BIDS compliant datasets.

Click to view the intro video!

BIDS Starter Kit Video

Table of Contents

Motivation

The primary goal of this project is to simplify the process of learning about the Brain Imaging Data Structure (BIDS). We hope that the resources in this wiki, such as links to tutorials, easy-to-read documentation, and code will make BIDS easier to adopt. In order to remain up to date with the continuously changing BIDS specifications, we have adopted a similarly open model to allow contributions from the community.

Project Summary

Neuroimaging and neurophysiology data can be costly in both time and money to acquire. This creates a barrier for many underfunded researchers without access to the required equipment. Responsible data sharing can level the playing field, but the many different specifications of these acquired images cause portability issues between different labs and scientists. BIDS is a framework for organizing data that standardizes file organization and dataset description between different researchers.

How do I find information?

For general information to help you get started with BIDS, we reccommend the wiki. It includes pages such as an overall introduction to the BIDS folder structure, links to tutorials, and a glossary to help you with some of the technical terms.

Make sure to check our FAQ !!!

For metadata file templates or code to help you get started, please scroll up to find the appropriate files that are available in your language of choice.

Finally, for more advanced knowledge that may pertain to specific use cases for your data, please refer to the full BIDS Specification

Philosophy

The most important part of BIDS are the users: if more people use it, more data will be shared and the more powerful it will become. We want to make it easy to learn and more adopted. Since BIDS is platform independent and still an adapting, growing tool, the greater the community, the better it will be.

Benefits

For the public good

  • Lowers scientific waste
  • Gives opportunity to less-funded researchers
  • Improves efficiency
  • Spurs innovation

For yourself

  • You are likely the future user of the data and data analysis pipelines you’ve developed
  • Enables and simplifies collaboration
  • Reviewers and funding agencies like to see reproducible results
  • Open-science based funding opportunities and awards available (i.e. OHBM Replication Award, Mozilla Open Science Fellowship, Google Summer of Code, etc.)

Users

BIDS is for everyone! Programming is not required, it simply makes some processes more efficient. All users can take part in the benefits such as organized data, reproducible research, and data sharing. users

Contributing

There are many ways to get in touch with us! Please see our Contact Page for all the details.

To find out more about all the different ways to contribute to the BIDS Starter Kit, check out our contributing guidelines. They'll tell you how to get in touch, give you some useful resources to help you contribute via GitHub, how you can edit the wiki or how to make a change using issues (you can also check out GitHub's help on issues) and a pull request.

If you're here during summer 2018 :icecream::palmtree:, you should reach out to our lovely Google Summer of Code student Patrick Park. It would really help his project along if you said hello and passed along any feedback you have :purpleheart:. Please don't be shy, the newer you are the more valuable your feedback is :thumbsup:

Acknowledgements

Sponsor Organizations

GSOC INCF Arnold Ventures NIH

Publications

Please consider citing the relevant papers when publishing a project that uses BIDS

All publications are listed in our wiki: https://github.com/bids-standard/bids-starter-kit/wiki/Publications

You'll almost always want to cite the original paper:

The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments

Scientific Data volume 3, Article number: 160044 (2016)

@article{gorgolewski2016brain,
  title={The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments},
  author={Gorgolewski, K. and Auer, T. and Calhoun, V. and others},
  journal={Scientific Data},
  year={2016},
  volume={3},
}


But there are also modality specific extension papers for MEG, EEG and iEEG, or the BIDS-Apps paper that should be referenced if you're using data of that type.

Contributors ✨

Thanks goes to these wonderful people (emoji key):


dorahermes

πŸ’» πŸ–‹ πŸ€” πŸ‘€ 🚧 πŸ“–

Chris Gorgolewski

πŸ‘€ 🚧 πŸ›

Chris Holdgraf

πŸ‘€ πŸ–‹ 🚧

Chris GahnstrΓΆm

πŸ’» πŸ–‹ πŸ€”

Elizabeth DuPre

πŸ‘€ 🚧 πŸ€” πŸ–‹ πŸ“–

Utmost Happiness

πŸ’» πŸ–‹ πŸ€”

Kirstie Whitaker

πŸ‘€ πŸ€” 🚧 πŸ–‹ πŸ“– πŸ›

Park-Patrick

πŸ€” πŸ–‹ πŸ‘€

Peer Herholz

πŸ’»

Cyril Pernet

πŸ’»

Stefan Appelhoff

πŸ‘€ πŸ’» πŸ–‹ πŸ€”

Ilkay Isik

πŸ›

Teon L Brooks

πŸ›

ayab

πŸ–‹

Remi Gau

πŸ–‹

Jaap van der Aar

πŸ’» πŸ–‹ πŸ€”

GiulioCastegnaro

πŸ’» πŸ–‹ πŸ€”

Franklin Feingold

πŸ› πŸ‘€

Thomas Nichols

πŸ‘€

Pieter Vandemaele

πŸ›

Guillaume

πŸ‘€ πŸ€”

Robert Oostenveld

πŸ› πŸ‘€ πŸ€”

Happy

πŸ–‹

Tal Pal Attia

πŸ’»

VisLab

πŸ€” πŸ–‹

Eduard Klapwijk

πŸ€”

Dorien Huijser

πŸ€”

Arshitha Basavaraj

πŸ€”

Lennart Wittkuhn

πŸ€”

Anthony Galassi

πŸ€” πŸ’»

Athanasia Monika Mowinckel

πŸ€” πŸ’»

Yoni Ashar

πŸ€”

dkp

πŸ›

James Kent

πŸ€”

Chris Benjamin

πŸ“–

Isla

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Chris Markiewicz

πŸ“–

Ankit Gupta

πŸ“–

Alex von Lautz

πŸ“–

Lex

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This project follows the all-contributors specification. Contributions of any kind welcome!

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