surv_update_rates: Update sequencing rates in a surveillance design
In survinger: Design-Adjusted Inference for Pathogen Lineage Surveillance

surv_update_rates

R Documentation

Update sequencing rates in a surveillance design

Description

Update sequencing rates in a surveillance design

Usage

surv_update_rates(design, new_rates)

Arguments

`design`	A `surv_design` object.
`new_rates`	Data frame with strata columns + `seq_rate`, or named numeric vector.

Value

Updated surv_design.

Examples

sim <- surv_simulate(n_regions = 3, n_weeks = 4, seed = 1)
d <- surv_design(sim$sequences, ~ region,
                 sim$population[c("region", "seq_rate")], sim$population)
new_r <- sim$population[c("region", "seq_rate")]
new_r$seq_rate <- new_r$seq_rate * 2
d2 <- surv_update_rates(d, new_r)

survinger documentation built on April 27, 2026, 9:10 a.m.