A significant number of XFG GISAID cases were assigned to XFC, by pangolin 4.1 . In which case, the consensus sequence for XFG is the same as XFC. When we look at nextclade classifications , we do not see this issue.
I assume the main reason for this may be due to the query definition that conflicts with XFG sars-cov-2-variants/lineage-proposals#2323 (comment)
. We run pangolin with "pangolin --update-data" and then run on input sequences . How should we run pangolin so that this issue no longer results in XFG/XFC confusion? updating usher data files, or running with specific flags etc.
A significant number of XFG GISAID cases were assigned to XFC, by pangolin 4.1 . In which case, the consensus sequence for XFG is the same as XFC. When we look at nextclade classifications , we do not see this issue.
I assume the main reason for this may be due to the query definition that conflicts with XFG sars-cov-2-variants/lineage-proposals#2323 (comment)
. We run pangolin with "pangolin --update-data" and then run on input sequences . How should we run pangolin so that this issue no longer results in XFG/XFC confusion? updating usher data files, or running with specific flags etc.