About This Project

This pipeline was developed as part of the SARS-2 Bioinformatics & Data Science course offered jointly by Freie Universität Berlin and the Robert Koch Institute.

Objectives

The aim was to create a reproducible, modular, and fully-documented pipeline for assembling and analyzing SARS-CoV-2 genomes from Illumina paired-end sequencing data using best-practice bioinformatics tools.

Author

Abhinav Mishra
Email: mishraabhinav@gmail.com

Instructors

  • Max von Kleist, Robert Koch Institute
  • Martin Hölzer, Freie Universität Berlin

Course Info

You can view on GitHub

Device and Environment

  • OS: Fedora Linux 38
  • Kernel: Linux 6.4.15-200.fc38.x86_64
  • Processor: Intel i5-8250U (8 cores)
  • Memory: 8 GB
  • GPU: Intel UHD 620

Acknowledgments

Special thanks to the course instructors and the contributing open-source bioinformatics community whose tools made this project possible.

License

This work is licensed under the BSD 3-Clause License.

For a list of references, see references.md.