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        "author": "Christophe Bedetti",
        "author_email": "christophe.bedetti@umontreal.ca",
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        "description": "[![PyPI version](https://badge.fury.io/py/dcm2bids.svg)](https://pypi.org/project/dcm2bids) [![Documentation](https://img.shields.io/badge/documentation-dcm2bids-succes.svg)](https://cbedetti.github.io/Dcm2Bids) [![DOI](https://zenodo.org/badge/doi/10.5281/zenodo.2616548.svg)](https://zenodo.org/badge/latestdoi/59581295)\n\n<!--\n[![https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg](https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg)](https://singularity-hub.org/collections/544)\n-->\n\n# dcm2bids\n\n`dcm2bids` reorganises NIfTI files from [dcm2niix][dcm2niix-github] into the [Brain Imaging Data Structure][bids] (BIDS).\n\nBefore using this software, learn more about BIDS:\n\n- read the BIDS [specifications][bids-spec] and the [paper][bids-nature]\n- some dataset [examples][bids-examples]\n\nFollow the [guide](https://cbedetti.github.io/Dcm2Bids/guide)\n\n## Install\n\n`pip install dcm2bids`\n\nor\n\n`pip install --user dcm2bids`\n\n## Dependencies\n\n- [dcm2niix][dcm2niix-github] to convert DICOM to NIfTI. **You need to install it**\n    - [install instructions][dcm2niix-install]\n    - [Recent release][dcm2niix-release]\n\n## Upgrading\n\n`pip install --upgrade dcm2bids`\n\n# TL;DR\n\nSteps to get your data in BIDS :\n\n- `cd <YOUR_FUTURE_BIDS_FOLDER>`\n- `dcm2bids_scaffold`\n- `dcm2bids_helper -d <FOLDER_WITH_DICOMS_OF_A_TYPICAL_SESSION>`\n- Build your configuration file with the help of the content of `tmp_dcm2bids/helper`\n- `dcm2bids -d DICOM_DIR -p PARTICIPANT_ID -c CONFIG_FILE` for each participants of your study\n\ndcm2bids creates log files inside `<YOUR_FUTURE_BIDS_FOLDER>/tmp_dcm2bids/log`\n\n## bids-validator\n\nRun the [bids-validator][bids-validator] to check your directory. Don't forget to create a `.bidsignore` file at the root of your BIDS directory with `tmp_dcm2bids/*` inside.\n\n## Similar projects\n\nOther tools to create [BIDS][bids] datasets :\n\n- [heudiconv][link-heudiconv]\n- [bidskit][link-bidskit]\n- [dac2bids][link-dac2bids]\n\n[bids]: http://bids.neuroimaging.io/\n[bids-examples]: https://github.com/bids-standard/bids-examples\n[bids-nature]: https://www.nature.com/articles/sdata201644\n[bids-spec]: https://bids-specification.readthedocs.io/en/stable/\n[bids-validator]: https://github.com/bids-standard/bids-validator\n[dcm2bids-doc]: https://cbedetti.github.io/Dcm2Bids\n[dcm2niix-github]: https://github.com/rordenlab/dcm2niix\n[dcm2niix-install]: https://github.com/rordenlab/dcm2niix#install\n[dcm2niix-release]: https://github.com/rordenlab/dcm2niix/releases\n[link-heudiconv]: https://github.com/nipy/heudiconv\n[link-bidskit]: https://github.com/jmtyszka/bidskit\n[link-dac2bids]: https://github.com/dangom/dac2bids\n\n\n",
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