log_lik_rho: Log likelihood of test sensitivity

In mirjamlaager/mrsamcmc: An Implementation of Data Augmented MCMC for Inference on MRSA Transmission

Description

This function calculates the test sensitivity component of the overall log likelihood.

Usage

log_lik_rho(colonisations, statuses, TP_no_abx, TP_abx,
  test_results_negative, antibiotics, rho_1, rho_2)

Arguments

colonisations	a vector with days of colonisation of the patients.
statuses	a vector the statuses on discharge of the patients
TP_no_abx	the number of true positive tests without antibiotics.
TP_abx	the number of true positive tests with antibiotics.
test_results_negative	a matrix where each row corresponds to a patient and the entries correspond to a day with a negative test result.
antibiotics	a matrix where each row corresponds to a patient and the entries correspond to a day when antibiotics were administered.
rho_1	the test sensitivity without antibiotics (baseline).
rho_2	the test sensitivity with antibiotics.

mirjamlaager/mrsamcmc documentation built on May 20, 2020, 11:13 a.m.