This README file explains the workflow which was done for learning project on "Workspace and workflow management in biology" course at Skoltech.
Some deadly strain of bacteriophage T5 makes a carnage for E. coli. For this imaginary situation, one could find a variant calling pipeline for the analysis of this strain in this repository.
Working notes link: Notion
- FastQC v0.11.9
- Trimmomatic-0.39
- bwa v.0.7.17-r1188
- samtools 1.13
- bcftools v.1.13
- Ubuntu 22.04.1 LTS (GNU/Linux 5.10.16.3-microsoft-standard-WSL2 x86_64)
Telegram: https://t.me/lesidon E-mail: [email protected]