Metadata-Version: 2.1
Name: hydra-genetics
Version: 0.1.0
Summary: Helper tools for use with hydra-genetics pipelines.
Home-page: https://github.com/hydra-genetics/tools
Author: Patrik Smeds
Author-email: patrik.smeds@scilifelab.uu.se
License: GPL-3
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](https://github.com/hydra-genetics/tools/blob/develop/hydra_genetics/pipeline-template/workflow/schemas/units.schema.yaml) and [samples.tsv](https://github.com/hydra-genetics/prealignment/blob/develop/workflow/schemas/samples.schema.yaml) files which are used as input. 
        
        [![Lint and Test](https://github.com/hydra-genetics/tools/actions/workflows/main.yaml/badge.svg?branch=develop)](https://github.com/hydra-genetics/tools/actions/workflows/main.yaml)
        
        ![python](https://img.shields.io/badge/python-3.8-blue)
        
        ## 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"
        ```
        
Keywords: hydra-genetics,snakemake,bioinformatics,workflow,pipeline,clinical,biology,sequencing,NGS,next generation sequencing
Platform: UNKNOWN
Description-Content-Type: text/markdown
