├── .github └── ISSUE_TEMPLATE │ ├── bug_report.md │ └── feature_request.md ├── .gitignore ├── .readthedocs.yaml ├── CITATION.cff ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── docs ├── conf.py ├── configuration_files.rst ├── future_additions.rst ├── images │ ├── GUI.png │ ├── HTML_report.png │ ├── ROI_example.png │ ├── excluded_voxels.png │ ├── fRAT.gif │ ├── final_roi_atlas.png │ ├── input_folder_analysis.png │ ├── input_folder_anat.png │ ├── input_folder_parsed.png │ ├── input_folder_statistics.png │ ├── input_folder_subjects.png │ ├── output_folder.png │ ├── process_overview.svg │ └── voxel_and_roi_example.png ├── index.rst ├── installation.rst ├── key_concepts_of_frat.rst ├── links.rst ├── requirements.txt ├── statement_of_need.rst ├── troubleshooting.rst ├── tutorials.rst └── tutorials │ └── Basic-ROI-analysis.rst ├── fRAT ├── HOUSE │ ├── __init__.py │ ├── add_motion.py │ ├── add_noise.py │ ├── handler.py │ └── separate_noise_volumes.py ├── __main__.py ├── _version.py ├── configuration_profiles │ ├── latest_settings.toml │ ├── maps │ │ ├── default_config.toml │ │ ├── statmap_config.toml │ │ └── test_config.toml │ └── roi_analysis │ │ ├── default_config.toml │ │ ├── fRAT_config.toml │ │ └── test_config.toml ├── images │ └── fRAT.gif ├── nogui.py └── utils │ ├── __init__.py │ ├── analysis.py │ ├── bootstrap.css │ ├── dash_report.py │ ├── directory_comparison.py │ ├── fRAT_config_setup.py │ ├── figures.py │ ├── html_report.py │ ├── printResults.py │ ├── script.js │ ├── statistics.py │ ├── statmap.py │ ├── statmap_config_setup.py │ └── utils.py ├── paper ├── GUI.png ├── brain_images.png ├── paper.bib ├── paper.md └── process_overview.png ├── poetry.lock └── pyproject.toml /.github/ISSUE_TEMPLATE/bug_report.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/elliohow/fMRI_ROI_Analysis_Tool/HEAD/.github/ISSUE_TEMPLATE/bug_report.md 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