Nothing

```
#' Estimate the time since the onset of hybridization, using the observed
#' number of junctions, taking into account the distribution of markers on
#' a single chromosome
#' @description Estimate the time since the onset of hybridization, following
#' equation 1 in Janzen et al. unpublished
#' @param J The observed number of junctions
#' @param N Population Size
#' @param H_0 Frequency of heterozygosity at t = 0
#' @param marker_distribution A vector containing the position of all markers
#' in Morgan.
#' @param lower_lim lower limit of the optimization algorithm. Increase if the
#' expected admixture time is relatively ancient
#' @param upper_lim upper limit of the optimization algorithm. If set too large,
#' recent admixture events can be overlooked - best to set as low as possible.
#' @return The number of generations passed since the onset of hybridization
#' @examples
#' cat("example estimate time one chrom")
#' markers <- seq(from = 0, to = 1, length.out = 100)
#' J <- number_of_junctions_markers(N = 100, H_0 = 0.5, t = 200,
#' marker_distribution = markers)
#' estimate_time_one_chrom(J = J,
#' N = 100,
#' H_0 = 0.5,
#' marker_distribution = markers) #should be 200 again
#' @export
estimate_time_one_chrom <- function(J = NA, # nolint
N = Inf, # nolint
H_0 = 0.5, # nolint
marker_distribution = NA,
lower_lim = 2,
upper_lim = 1000) {
if (length(marker_distribution) < 2) {
stop("not enough markers provided")
}
to_fit <- function(params) {
expected_j <-
number_of_junctions_markers(N = N,
H_0 = H_0,
t = params[[1]],
marker_distribution)
return(abs(expected_j - J))
}
fitted <- stats::optimize(to_fit, interval = c(lower_lim, upper_lim))
if (fitted$minimum >= 0.9 * upper_lim) {
warning("estimated time is close to the upper limit of time inference\n",
"consider adjusting the upper limit to improve accuracy\n")
}
return(fitted$minimum)
}
```

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