A Nextflow wrapped workflow for generating the mutation profiles of SARS-CoV-2 genomes (Variants of Concern and Variants of Interest). Workflow is developed in collaboration with COVID-MVP (https://github.com/cidgoh/COVID-MVP) which can be used to visualize the mutation profiles and functional annotations.
Pangolin is required to assign lineages to the sequences on the go (atleast as an optional way), given the mapping to GISAID takes long time and requires updated metadata file everytime
Pangolin is required to assign lineages to the sequences on the go (atleast as an optional way), given the mapping to GISAID takes long time and requires updated metadata file everytime