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mkdocs.yaml
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mkdocs.yaml
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site_name: scDEF
theme:
name: "material"
features:
- navigation.tabs
- navigation.sections
- toc.integrate
- search.suggest
- search.highlight
- content.tabs.link
- content.code.annotation
- content.code.copy
language: en
palette:
- scheme: default
toggle:
icon: material/toggle-switch-off-outline
name: Switch to dark mode
primary: indigo
- scheme: slate
toggle:
icon: material/toggle-switch
name: Switch to light mode
primary: indigo
favicon: assets/images/icon.svg
logo: assets/images/icon.svg
custom_dir: docs/overrides/
plugins:
- search
- mkdocs-jupyter:
execute: false
include_source: true
- mkdocstrings:
default_handler: python
handlers:
python:
paths: [src]
options:
show_source: false
show_root_heading: true
nav:
- Getting started: index.md
- Examples:
- Basic usage: examples/basicusage.md
- Getting started with 3k PBMCs: examples/scdef-pbmcs3k.ipynb
- Cell type hierarchies in a whole adult animal: examples/scdef-planaria.ipynb
- Integrating two batches of PBMCs: examples/scdef-pbmcs-2batches.ipynb
- Identifying interferon-response between two batches of PBMCs: examples/scdef-ifn.ipynb
- API Reference: api.md
repo_name: scDEF
repo_url: https://github.com/cbg-ethz/scDEF
watch:
- src/scdef