About
Tool versions
| Tools | Version |
|---|---|
| snakemake | v7.21.0 |
| seqkit | v2.3.0 |
| minimap2 | v2.24-r1122 |
| samtools | v1.16.1 |
| bamCoverage | v3.5.1 |
| plotCoverage | v3.5.1 |
| sniffles2 | v2.2 |
| tabix | v1.16 |
| bgzip | v1.16 |
| bcftools | v1.16 |
| medaka | v1.11.3 |
Contributor
- Arnaud Soulier (Github profil)
- Catherine Breton (Github profil)
- Emira Cherif (Github profil)
- Anna-Sophie Fiston-Lavier (Github profil)
Publications
- Variant calling pipeline designed for the Bioinformatics Learning Lab (BILL: release_2023.1). Anna-Sophie Fiston-Lavier Arnaud Soulier, Alizée Arnoux, Catherine Breton, Emira Cherif, Zenodo. https://doi.org/10.5281/zenodo.10020027
Realease
release_2023
→ First release (July 2023). Use during the BILL classes January 2023.
release_2023.1
→ Readme update.
release_2024
→ Include new module to benchmark several variant callers.