A simulated dataset of weekly influenza A/H3N2 clade sequence counts over a single Northern Hemisphere season (24 weeks).
Format
A data frame with 96 rows and 4 columns:
- date
Collection date (Date, weekly).
- clade
Clade name (character).
- count
Number of sequences (integer).
- total
Total sequences for this week (integer).
Examples
data(influenza_h3n2)
x <- lfq_data(influenza_h3n2, lineage = clade,
date = date, count = count, total = total)
x
#>
#> ── Lineage frequency data
#> 4 lineages, 24 time points
#> Date range: 2023-10-01 to 2024-03-10
#> Lineages: "2a1b.1, 2a1b.2a.1, 2a1b.2a.2, Other"
#>
#> # A tibble: 96 × 7
#> .date .lineage .count total .total .freq .reliable
#> * <date> <chr> <int> <int> <int> <dbl> <lgl>
#> 1 2023-10-01 2a1b.1 137 515 515 0.266 TRUE
#> 2 2023-10-01 2a1b.2a.1 234 515 515 0.454 TRUE
#> 3 2023-10-01 2a1b.2a.2 51 515 515 0.0990 TRUE
#> 4 2023-10-01 Other 93 515 515 0.181 TRUE
#> 5 2023-10-08 2a1b.1 84 303 303 0.277 TRUE
#> 6 2023-10-08 2a1b.2a.1 123 303 303 0.406 TRUE
#> 7 2023-10-08 2a1b.2a.2 45 303 303 0.149 TRUE
#> 8 2023-10-08 Other 51 303 303 0.168 TRUE
#> 9 2023-10-15 2a1b.1 95 451 451 0.211 TRUE
#> 10 2023-10-15 2a1b.2a.1 196 451 451 0.435 TRUE
#> # ℹ 86 more rows