This is the computation wiki for the CIDC-bioinformatics team.
We document how to run WES, RNA-seq, and ATAC-seq pipelines on google cloud, and many others at this central place.
All the documentations are written in plain markdown and deployed using the awesome MkDocs. The deployed website can be found at https://cimac-cidc.github.io/CIDC-bioinformatics-computation-wiki/
Please read Github flow for how a general workflow is executed.
pip install mkdocs
##### Theme #####
## https://squidfunk.github.io/mkdocs-material/
pip install mkdocs-material
#### Extensions ####
### pymdown-extensions ###
## requirements
pip install markdown
pip install pygments
pip install fontawesome_markdown
## install
pip install pymdown-extensions
#### Plugins ####
pip install mkdocs-git-revision-date-plugin
pip install mkdocs-git-revision-date-localized-plugin
pip install mkdocs-minify-plugin