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Counts of COVID-19 variants

Source: R/data.R
england_variants.Rd

Data from the COG-UK and Sanger centre sequencing programme. The data were made available through the Welcome foundation at Lower tier local authority level, and is weekly timeseries of counts per variant. Variants were assigned using the tree structure of the Pango lineage. Different sub-lineages are aggregated to the major WHO variants of concern.

Usage

data(england_variants)

Format

A dataframe containing the following columns:

  • date (date) - the end date of the week

  • time (as.time_period) - the time column

  • class (enum(Other,Alpha (B.1.1.7),Delta (B.1.617.2),Delta (AY.4),Omicron (Other),Omicron (BA.2),Omicron (BA.4),Omicron (BA.5),XBB (Other),Kraken (XBB.1.5),Arcturus (XBB.1.16),Eris (EG.5.1))) - the class column

  • who_class (enum(Other,Alpha,Delta,Omicron,Kraken,Arcturus,Eris)) - the who_class column

  • count (numeric) - the weekly count column

  • denom (numeric) - the number of sequences performed in that week

Must be grouped by: class (and other groupings allowed).

No default value.

479 rows and 6 columns