This is a SARS-CoV-2 sequencing project done at the BSSE relying on V-pipe (doi:10.1093/bioinformatics/btab015) to analyse Illumina data done on positive swabs test samples for the genomic surveillance of the COVID-19 pandemic in Switzerland and on wastewater samples provided by EPFL and Eawag.
for the V-pipe pipeline, see:
- tutorial: https://cbg-ethz.github.io/V-pipe/tutorial/sars-cov2/ (video tutorial)
- SARS-CoV-2 subpage: https://cbg-ethz.github.io/V-pipe/sars-cov-2/
- main website: https://cbg-ethz.github.io/V-pipe/
- github repo: https://github.com/cbg-ethz/V-pipe
for the code used in wastewater analysis, see:
Short Oral presentation done at the ECCVID conference in September 2020: