loglike_fast: Calculate the log likelihood of a cluster conditioned on size...

In skgallagher/TBornotTB: Analyze Tuberculosis Patients in Maryland

Description

Calculate the log likelihood of a cluster conditioned on size and smear pos. num

Usage

loglike_fast(
  par,
  data,
  sampled_trees_summary,
  is_truncated = FALSE,
  return_neg = FALSE
)

Arguments

par	vector where the first parameter is "beta_0" and the second is "beta_1"
data	data frame with columns n number in cluster n_pos number of positive smears in cluster freq number of times this frequency occurs
sampled_trees_summary	data frame with the following columns
is_truncated	logical. Default is FALSE
return_neg	logical. Should I return the negative log likelihood? i_pos number of transmission from a smear positive person n_pos number of positive smears n cluster size freq time it occurs

Value

log likelihood summed over the clusters

skgallagher/TBornotTB documentation built on April 21, 2020, 1:19 p.m.