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
andproject_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