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mkdocs.yml
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# Project information
site_name: ClinicaDL Documentation
site_author: ClinicaDL contributors
site_url: https://clinicadl.readthedocs.io/
site_description: >-
Open-source deep learning software for reproducible neuroimaging processing
# Repository
repo_name: aramislab/clinicadl
repo_url: https://github.com/aramis-lab/clinicadl
#edit_uri: master/edit/doc
# Copyright
copyright: Copyright © 2019-2024 ClinicaDL contributors
# Google Analytics
google_analytics:
- UA-106080699-1
- auto
# Configuration
theme:
name: material
custom_dir: docs/overrides
icon:
repo: material/github
language: en
logo: images/clinicadl_logo.png
favicon: images/favicon.png
features:
- header.autohide
palette:
- media: "(prefers-color-scheme: light)"
scheme: default
toggle:
icon: material/toggle-switch-off-outline
name: Switch to dark mode
- media: "(prefers-color-scheme: dark)"
scheme: slate
toggle:
icon: material/toggle-switch
name: Switch to light mode
# Version panel
extra_javascript:
- "https://code.jquery.com/jquery-3.3.1.min.js"
# Customization
extra:
feature:
tabs: true
social:
- icon: material/github
link: https://github.com/aramis-lab/
- icon: material/twitter
link: https://twitter.com/clinica_run
- icon: material/earth
link: http://www.aramislab.fr
version:
default: stable
extra_css:
- stylesheets/extra.css
# Extensions
markdown_extensions:
- admonition
- codehilite
- footnotes
- pymdownx.details
- pymdownx.superfences
- md_in_html
- toc:
permalink: True
# Page tree
nav:
- Home: index.md
- Installation: Installation.md
- First steps: Introduction.md
- Prepare your metadata: TSVTools.md
- Prepare your imaging data:
- Introduction: Preprocessing/Introduction.md
- Extract tensors: Preprocessing/Extract.md
- Quality check: Preprocessing/QualityCheck.md
- Generate synthetic data sets: Preprocessing/Generate.md
- Hyperparameter exploration: RandomSearch.md
- Train deep learning networks:
- TOML or command line definition: Train/Introduction.md
- Reproduce experiments: Train/Retrain.md
- Resume training: Train/Resume.md
- Implementation details: Train/Details.md
- Inference using trained models: Predict.md
- Interpret with attribution maps: Interpret.md
- Advanced user guide:
- Customize your training: Contribute/Custom.md
- Test your modifications: Contribute/Test.md
- Contribute to the project: Contribute/Newcomers.md