Helper tools for use with hydra-genetics pipelines.
Project description
Tools
Command line interface to create new modules/pipelines or adding a new rule to an existing project. Provides libraries used to make it easier for people not used to pandas to extract information from samples and units dataframes. These dataframes are generated from units.tsv and samples.tsv files which are used as input.
Functions
- create
- reference
Example of how to generate a new project
virtualenv -p python3.9 venv
source venv/bin/activate
pip install hydra-genetics
hydra-genetics create-module -n snv -d "Collection of callers" -a "Patrik S" -e "p.s@mail.se" -g patrik -o snv
hydra-genetics create-rule -n rule2 -m snv -a test2 -e "test@test"
# Create input files
hydra-genetics create-input-files -d path/dir1 -d path/dir2
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