README.md

# STR detection pipeline

- ASDP PIPELINE
- Author: anne-sophie.denomme-pichon@u-bourgogne.fr
- Version: 0.0.1
- Licence: FIXME
- Description: How to launch scripts to get STR genotype from genomes on all the locus tested

1. Create `genomes.list`
2. Specify output file in `launch_pipeline.sh`. Warning, don't overwrite existing files
3. Launch launch_pipeline.sh : `nohup ./launch_pipeline.sh &`. Dependencies :
   - `genomes.list`
   - `pipeline.sh`
   - `wrapper_delete.sh`
   - `wrapper_ehdn.sh`
   - `wrapper_expansionhunter.sh`
   - `wrapper_gangstre.sh`
   - `wrapper_transfer.sh`
   - `wrapper_tredparse.sh`
4. Launch `getResults.py`. Warning, don't overwrite existing files.