Quality Control and Data Integration of Multi-omics Profiling
Multi-omics (or molecular phenomics) profiling at the genomic, transcriptomic, proteomic, and metabolomic levels is the cornerstone of high-throughput technologies for discovering biomarkers for precision medicine. However, the lack of quality control procedures of multi-omics profiling during data generation and data analysis can lead to false findings, raising serious concerns about the reliability of multi-omics studies.
The Quartet Project provides publicly accessible multi-omics reference materials and practical tools to enhance the reproducibility and reliability of multi-omics results. Well-characterized multiomics reference materials and quality control metrics pertinent to precision medicine study purposes can be used to measure and mitigate technical variation, enabling more accurate cross-batch and cross-omics data integration in increasingly large-scale and longitudinal studies such as the International Human Phenome Project.
# Clone the repository
git clone https://github.com/yjcyxky/docs.chinese-quartet.org.git
cd docs.chinese-quartet.org
# Create virtual environment
virtualenv .env
# Activate virtual environment
source .env/bin/activate
# Install dependencies
pip install -r requirements.txt
If you want to launch the docs website locally, you can use the following command:
mkdocs serve
The output should be like this:
(quartet-docs) ➜ /quartet-docs git:(master) ✗ > mkdocs serve
INFO - Building documentation...
WARNING - Config value: 'announce'. Warning: Unrecognised configuration name: announce
WARNING - Config value: 'announce_text'. Warning: Unrecognised configuration name: announce_text
INFO - Cleaning site directory
INFO - The following pages exist in the docs directory, but are not included in the "nav" configuration:
- about/collaborators.md
- about/members.md
- data_dictionary/about.md
- data_dictionary/metadata.md
- ...
INFO - Documentation built in 3.18 seconds
INFO - [09:30:55] Watching paths for changes: 'docs', 'mkdocs.yml'
INFO - [09:30:55] Serving on http://127.0.0.1:8000/
After that, you can visit the website at http://127.0.0.1:8000/. Then you can edit the markdown files and see the changes in real time.
Modify the markdown files in the docs folder. If you want to modify the table of contents, please modify the mkdocs.yml file.
You can follow the MkDocs documentation to learn more.
If you want to submit your changes, please push your changes to your own branch and create a pull request.
git checkout -b <Your Branch Name>
git add -u
git commit -m "<Your Message>"
git push origin <Your Branch Name>
After merging the pull request, the docs website will be automatically published to https://docs.chinese-quartet.org.