[
{
"path": ".all-contributorsrc",
"content": "{\n \"files\": [\n \"README.md\"\n ],\n \"imageSize\": 100,\n \"commit\": false,\n \"contributors\": [\n {\n \"login\": \"dorahermes\",\n \"name\": \"Dora Hermes\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/4977351?v=4\",\n \"profile\": \"https://github.com/dorahermes\",\n \"contributions\": [\n \"code\",\n \"content\",\n \"ideas\",\n \"review\",\n \"maintenance\",\n \"doc\"\n ]\n },\n {\n \"login\": \"chrisgorgo\",\n \"name\": \"Chris Gorgolewski\",\n \"avatar_url\": \"https://avatars2.githubusercontent.com/u/238759?v=4\",\n \"profile\": \"http://chrisgorgolewski.org\",\n \"contributions\": [\n \"review\",\n \"maintenance\",\n \"bug\"\n ]\n },\n {\n \"login\": \"choldgraf\",\n \"name\": \"Chris Holdgraf\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/1839645?v=4\",\n \"profile\": \"http://chrisholdgraf.com\",\n \"contributions\": [\n \"review\",\n \"content\",\n \"maintenance\"\n ]\n },\n {\n \"login\": \"cofficer\",\n \"name\": \"Chris GahnstrΓΆm\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/12600386?v=4\",\n \"profile\": \"https://chrisgahnstrom.wordpress.com/\",\n \"contributions\": [\n \"code\",\n \"content\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"emdupre\",\n \"name\": \"Elizabeth DuPre\",\n \"avatar_url\": \"https://avatars3.githubusercontent.com/u/15017191?v=4\",\n \"profile\": \"http://emdupre.me\",\n \"contributions\": [\n \"review\",\n \"maintenance\",\n \"ideas\",\n \"content\",\n \"doc\"\n ]\n },\n {\n \"login\": \"anushkab\",\n \"name\": \"Utmost Happiness\",\n \"avatar_url\": \"https://avatars0.githubusercontent.com/u/20943511?v=4\",\n \"profile\": \"https://github.com/anushkab\",\n \"contributions\": [\n \"code\",\n \"content\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"KirstieJane\",\n \"name\": \"Kirstie Whitaker\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/3626306?v=4\",\n \"profile\": \"https://whitakerlab.github.io\",\n \"contributions\": [\n \"review\",\n 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\"content\"\n ]\n },\n {\n \"login\": \"JaapVanDerAar\",\n \"name\": \"Jaap van der Aar\",\n \"avatar_url\": \"https://avatars3.githubusercontent.com/u/32334327?v=4\",\n \"profile\": \"https://github.com/JaapVanDerAar\",\n \"contributions\": [\n \"code\",\n \"content\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"GiulioCastegnaro\",\n \"name\": \"Giulio Castegnaro\",\n \"avatar_url\": \"https://avatars2.githubusercontent.com/u/45361920?v=4\",\n \"profile\": \"https://github.com/GiulioCastegnaro\",\n \"contributions\": [\n \"code\",\n \"content\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"franklin-feingold\",\n \"name\": \"Franklin Feingold\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/35307458?v=4\",\n \"profile\": \"https://github.com/franklin-feingold\",\n \"contributions\": [\n \"bug\",\n \"review\"\n ]\n },\n {\n \"login\": \"nicholst\",\n \"name\": \"Thomas Nichols\",\n \"avatar_url\": \"https://avatars3.githubusercontent.com/u/5155907?v=4\",\n \"profile\": \"http://www.nisox.org\",\n \"contributions\": [\n \"review\"\n ]\n },\n {\n \"login\": \"pvdemael\",\n \"name\": \"Pieter Vandemaele\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/37624277?v=4\",\n \"profile\": \"https://github.com/pvdemael\",\n \"contributions\": [\n \"bug\"\n ]\n },\n {\n \"login\": \"gllmflndn\",\n \"name\": \"Guillaume Flandin\",\n \"avatar_url\": \"https://avatars0.githubusercontent.com/u/5950855?v=4\",\n \"profile\": \"https://github.com/gllmflndn\",\n \"contributions\": [\n \"review\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"robertoostenveld\",\n \"name\": \"Robert Oostenveld\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/899043?v=4\",\n \"profile\": \"https://github.com/robertoostenveld\",\n \"contributions\": [\n \"bug\",\n \"review\",\n \"ideas\"\n ]\n },\n {\n \"login\": \"HappyFacade\",\n \"name\": \"Happy\",\n \"avatar_url\": \"https://avatars0.githubusercontent.com/u/54226355?v=4\",\n \"profile\": \"https://github.com/HappyFacade\",\n \"contributions\": [\n \"content\"\n ]\n },\n {\n \"login\": \"tpatpa\",\n \"name\": \"Tal Pal Attia\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/24300712?v=4\",\n \"profile\": \"https://www.linkedin.com/in/tal-pal-attia-201373b0/\",\n \"contributions\": [\n \"code\"\n ]\n },\n {\n \"login\": \"VisLab\",\n \"name\": \"Kay Robbins\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/1189050?v=4\",\n \"profile\": \"https://github.com/VisLab\",\n \"contributions\": [\n \"ideas\",\n \"content\"\n ]\n },\n {\n \"login\": \"eduardklap\",\n \"name\": \"Eduard Klapwijk\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/41283173?v=4\",\n \"profile\": \"https://erasmus-synclab.nl/\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"DorienHuijser\",\n \"name\": \"Dorien Huijser\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/58177697?v=4\",\n \"profile\": \"https://github.com/DorienHuijser\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"Arshitha\",\n \"name\": \"Arshitha Basavaraj\",\n \"avatar_url\": \"https://avatars1.githubusercontent.com/u/10297203?v=4\",\n \"profile\": \"http://cmn.nimh.nih.gov/dsst\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"lnnrtwttkhn\",\n \"name\": \"Lennart Wittkuhn\",\n \"avatar_url\": \"https://avatars0.githubusercontent.com/u/42233065?v=4\",\n \"profile\": \"https://lennartwittkuhn.com\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"bendhouseart\",\n \"name\": \"Anthony Galassi\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/28850131?v=4\",\n \"profile\": \"https://github.com/bendhouseart\",\n \"contributions\": [\n \"ideas\",\n \"code\"\n ]\n },\n {\n \"login\": \"Athanasiamo\",\n \"name\": \"Athanasia Monika Mowinckel\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/14014329?v=4\",\n \"profile\": \"http://DrMowinckels.io\",\n \"contributions\": [\n \"ideas\",\n \"code\"\n ]\n },\n {\n \"login\": \"yonestar\",\n \"name\": \"Yoni Ashar\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/4513934?v=4\",\n \"profile\": \"https://github.com/yonestar\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"dkp\",\n \"name\": \"dkp\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/965184?v=4\",\n \"profile\": \"https://github.com/dkp\",\n \"contributions\": [\n \"bug\"\n ]\n },\n {\n \"login\": \"jdkent\",\n \"name\": \"James Kent\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/12564882?v=4\",\n \"profile\": \"https://jdkent.github.io/\",\n \"contributions\": [\n \"ideas\"\n ]\n },\n {\n \"login\": \"cfxb\",\n \"name\": \"Chris Benjamin\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/39246257?v=4\",\n \"profile\": \"https://github.com/cfxb\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"Islast\",\n \"name\": \"Isla\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/23707851?v=4\",\n \"profile\": \"http://isla.st\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"effigies\",\n \"name\": \"Chris Markiewicz\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/83442?v=4\",\n \"profile\": \"https://github.com/effigies\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"ankiitgupta7\",\n \"name\": \"Ankit Gupta\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/25341569?v=4\",\n \"profile\": \"https://ankiitgupta7.github.io/\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"alexvonlautz\",\n \"name\": \"Alex von Lautz\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/44004062?v=4\",\n \"profile\": \"https://github.com/alexvonlautz\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"AlexandreHutton\",\n \"name\": \"Alexandre Hutton\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/50920802?v=4\",\n \"profile\": \"https://github.com/AlexandreHutton\",\n \"contributions\": [\n \"doc\"\n ]\n },\n {\n \"login\": \"AbrrenC\",\n \"name\": \"Abrren Chen\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/54808990?v=4\",\n \"profile\": \"http://Abrren_Chen\",\n \"contributions\": [\n \"maintenance\"\n ]\n },\n {\n \"login\": \"Gabomfim\",\n \"name\": \"Gabriel Silveira\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/21208915?v=4\",\n \"profile\": \"http://gabrielabs.com\",\n \"contributions\": [\n \"bug\",\n \"code\"\n ]\n },\n {\n \"login\": \"1nathanliang\",\n \"name\": \"nathan liang\",\n \"avatar_url\": \"https://avatars.githubusercontent.com/u/36468637?v=4\",\n \"profile\": \"http://1nathanliang.github.io\",\n \"contributions\": [\n \"bug\"\n ]\n }\n ],\n \"contributorsPerLine\": 7,\n \"projectName\": \"bids-starter-kit\",\n \"projectOwner\": \"bids-standard\",\n \"repoType\": \"github\",\n \"repoHost\": \"https://github.com\",\n \"skipCi\": true\n}\n"
},
{
"path": ".github/workflows/deploy_book.yml",
"content": "---\nname: deploy-book\n\nconcurrency:\n group: ${{ github.workflow }}-${{ github.ref }}\n cancel-in-progress: true\n\n# Only run this when the master branch changes\n\non:\n push:\n branches:\n - main\n\n# This job installs dependencies, build the book, and pushes it to `gh-pages`\n\njobs:\n deploy-book:\n runs-on: ubuntu-latest\n\n steps:\n - uses: actions/checkout@v4\n with:\n submodules: recursive\n fetch-depth: 0\n\n # Install dependencies\n - name: Set up Python\n uses: actions/setup-python@v5\n with:\n python-version: '3.12'\n - name: Install dependencies\n run: pip install jupyter-book sphinx-reredirects\n\n # Build the book\n - name: Build the book\n run: make book\n\n # Push the book's HTML to github-pages\n - name: GitHub Pages action\n uses: peaceiris/actions-gh-pages@v4.0.0\n with:\n github_token: ${{ secrets.GITHUB_TOKEN }}\n publish_dir: src/_build/html\n"
},
{
"path": ".gitignore",
"content": ".vscode/\n\n.DS_Store\n\nsrc/_build\n\ndesktop.ini\n\n.idea/\n\n# -----------------------------------------------------------------------------#\n\n## template MATLAB gitignore from\n# https://github.com/github/gitignore/blob/main/Global/MATLAB.gitignore\n\n# Windows default autosave extension\n*.asv\n\n# OSX / *nix default autosave extension\n*.m~\n\n# Compiled MEX binaries (all platforms)\n*.mex*\n\n# Packaged app and toolbox files\n*.mlappinstall\n*.mltbx\n\n# Generated helpsearch folders\nhelpsearch*/\n\n# Simulink code generation folders\nslprj/\nsccprj/\n\n# Matlab code generation folders\ncodegen/\n\n# Simulink autosave extension\n*.autosave\n\n# Simulink cache files\n*.slxc\n\n# Octave session info\noctave-workspace\n\n# -----------------------------------------------------------------------------#\n\n## template python gitignore from\n# https://github.com/github/gitignore/blob/main/Python.gitignore\n\n# Byte-compiled / optimized / DLL files\n__pycache__/\n*.py[cod]\n*$py.class\n\n# C extensions\n*.so\n\n# Distribution / packaging\n.Python\nbuild/\ndevelop-eggs/\ndist/\ndownloads/\neggs/\n.eggs/\nlib/\nlib64/\nparts/\nsdist/\nvar/\nwheels/\nshare/python-wheels/\n*.egg-info/\n.installed.cfg\n*.egg\nMANIFEST\n\n# PyInstaller\n# Usually these files are written by a python script from a template\n# before PyInstaller builds the exe, so as to inject date/other infos into it.\n*.manifest\n*.spec\n\n# Installer logs\npip-log.txt\npip-delete-this-directory.txt\n\n# Unit test / coverage reports\nhtmlcov/\n.tox/\n.nox/\n.coverage\n.coverage.*\n.cache\nnosetests.xml\ncoverage.xml\n*.cover\n*.py,cover\n.hypothesis/\n.pytest_cache/\ncover/\n\n# Translations\n*.mo\n*.pot\n\n# Django stuff:\n*.log\nlocal_settings.py\ndb.sqlite3\ndb.sqlite3-journal\n\n# Flask stuff:\ninstance/\n.webassets-cache\n\n# Scrapy stuff:\n.scrapy\n\n# Sphinx documentation\ndocs/_build/\n\n# PyBuilder\n.pybuilder/\ntarget/\n\n# Jupyter Notebook\n.ipynb_checkpoints\n\n# IPython\nprofile_default/\nipython_config.py\n\n# pyenv\n# For a library or package, you might want to ignore these files since the code is\n# intended to run in multiple environments; otherwise, check them in:\n# .python-version\n\n# pipenv\n# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.\n# However, in case of collaboration, if having platform-specific dependencies or dependencies\n# having no cross-platform support, pipenv may install dependencies that don't work, or not\n# install all needed dependencies.\n#Pipfile.lock\n\n# poetry\n# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.\n# This is especially recommended for binary packages to ensure reproducibility, and is more\n# commonly ignored for libraries.\n# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control\n#poetry.lock\n\n# PEP 582; used by e.g. github.com/David-OConnor/pyflow\n__pypackages__/\n\n# Celery stuff\ncelerybeat-schedule\ncelerybeat.pid\n\n# SageMath parsed files\n*.sage.py\n\n# Environments\n.env\n.venv\nenv/\nvenv/\nENV/\nenv.bak/\nvenv.bak/\n\n# Spyder project settings\n.spyderproject\n.spyproject\n\n# Rope project settings\n.ropeproject\n\n# mkdocs documentation\n/site\n\n# mypy\n.mypy_cache/\n.dmypy.json\ndmypy.json\n\n# Pyre type checker\n.pyre/\n\n# pytype static type analyzer\n.pytype/\n\n# Cython debug symbols\ncython_debug/\n\n# PyCharm\n# JetBrains specific template is maintained in a separate JetBrains.gitignore that can\n# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore\n# and can be added to the global gitignore or merged into this file. For a more nuclear\n# option (not recommended) you can uncomment the following to ignore the entire idea folder.\n#.idea/\n"
},
{
"path": "LICENSE",
"content": "Attribution 4.0 International\n\n=======================================================================\n\nCreative Commons Corporation (\"Creative Commons\") is not a law firm and\ndoes not provide legal services or legal advice. Distribution of\nCreative Commons public licenses does not create a lawyer-client or\nother relationship. Creative Commons makes its licenses and related\ninformation available on an \"as-is\" basis. Creative Commons gives no\nwarranties regarding its licenses, any material licensed under their\nterms and conditions, or any related information. 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If the provision\n cannot be reformed, it shall be severed from this Public License\n without affecting the enforceability of the remaining terms and\n conditions.\n\n c. No term or condition of this Public License will be waived and no\n failure to comply consented to unless expressly agreed to by the\n Licensor.\n\n d. Nothing in this Public License constitutes or may be interpreted\n as a limitation upon, or waiver of, any privileges and immunities\n that apply to the Licensor or You, including from the legal\n processes of any jurisdiction or authority.\n\n\n=======================================================================\n\nCreative Commons is not a party to its public\nlicenses. Notwithstanding, Creative Commons may elect to apply one of\nits public licenses to material it publishes and in those instances\nwill be considered the βLicensor.β The text of the Creative Commons\npublic licenses is dedicated to the public domain under the CC0 Public\nDomain Dedication. 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},
{
"path": "Makefile",
"content": ".PHONY: all clean\n\ndefine BROWSER_PYSCRIPT\nimport os, webbrowser, sys\n\nfrom urllib.request import pathname2url\n\nwebbrowser.open(\"file://\" + pathname2url(os.path.abspath(sys.argv[1])))\nendef\nexport BROWSER_PYSCRIPT\n\ndefine PRINT_HELP_PYSCRIPT\nimport re, sys\n\nfor line in sys.stdin:\n\tmatch = re.match(r'^([a-zA-Z_-]+):.*?## (.*)$$', line)\n\tif match:\n\t\ttarget, help = match.groups()\n\t\tprint(\"%-20s %s\" % (target, help))\nendef\nexport PRINT_HELP_PYSCRIPT\n\nBROWSER := python -c \"$$BROWSER_PYSCRIPT\"\n\n# Put it first so that \"make\" without argument is like \"make help\".\nhelp:\n\t@python -c \"$$PRINT_HELP_PYSCRIPT\" < $(MAKEFILE_LIST)\n\nclean:\n\trm -fr src/_build/\n\nbook: clean ## build the book\n\tjupyter-book build src\n\nview: book ## view the book\n\t$(BROWSER) $$PWD/src/_build/html/index.html\n\ntest: ## build the book and tests the links\n\tjupyter-book build src --builder linkcheck\n"
},
{
"path": "README.md",
"content": "\n[](#contributors-)\n\n\n# The Starter-kit has moved to the new BIDS website.\n\n## Contributors β¨\n\nThanks goes to these wonderful people\n([emoji key](https://allcontributors.org/docs/en/emoji-key)):\n\n\n\n\n
\n\n\n\n\n\n\nThis project follows the\n[all-contributors](https://github.com/all-contributors/all-contributors)\nspecification. Contributions of any kind welcome!\n"
},
{
"path": "interactiveTreeVisualization/epilepsyClassification2017/tree.html",
"content": "\n\n\n\n \n\n ILAE classification of the epilepsies Tree\n\n \n\n\n\n\n
ILAE classification of the epilepsies Tree
\n\n
Scheffer, I. E., Berkovic, S., Capovilla, G., Connolly, M. B., French, J., Guilhoto, L., ... &\n Nordli, D. R. (2017). ILAE classification of the epilepsies: position paper of the ILAE Commission for\n Classification and Terminology. Epilepsia, 58(4), 512-521.
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