QuaC

🦆🦆 Don't duck that QC thingy 🦆🦆

What can I quac about?

• Somalier
  • Relatedness
  • Sex
  • Ancestry
• indexcov
  • (Estimated) coverage of smaples

How to quac?

• Modify config file configs/workflow.yaml as needed. Note: projects_path and project_name may be the most important ones you would care about.
• Pedigree file specific to the project is required. Should be stored as data/raw/ped/<project_name>.ped.
• See the header of workflow/Snakefile for usage instructions on how to run the workflow

module reset
module load Anaconda3/2020.02

# create conda environment. Needed only the first time.
conda env create --file configs/env/quac.yaml

# if you need to update existing environment
conda env update --file configs/env/quac.yaml

# activate conda environment
conda activate quac