pathogen-variant-surveillance

Summarizes current pathogen lineage names, submitted-sequence proportions, reporting delays, and mutation frequencies using public LAPIS data.

When to use it

Use when a question depends on currently submitted lineages, current lineage definitions, or changes in the submitted-sequence distribution.

Give it a pathogen surveillance question; it returns descriptive results with counts, denominators, uncertainty intervals, snapshot versions, dates, and exclusions.