HAVoC, a bioin­form­atic pipeline for ref­er­ence-based con­sensus as­sembly and lin­eage as­sign­ment for SARS-CoV-2 se­quences. HAVoC is a pipeline utilizing several bioinformatic tools to perform multiple necessary analyses for investigating genetic variance among SARS-CoV-2 samples.The pipeline is ideal for those who need a more accessible and fast tool to detect and monitor the spread of SARS-CoV-2 variants of concern during local outbreaks.

If using HAVoC, please cite :

Truong Nguyen, PT; Plyusnin, I; Sironen, T; Vapalahti O; Kant R and Smura T - HAVoC, a bioinformatic pipeline for reference-based consensus assembly and lineage assignment for SARS-CoV-2 sequences. BMC Bioinformatics 22, 373 (2021). https://doi.org/10.1186/s12859-021-04294-2