![[Stable]](figures/lifecycle-stable.svg)
Contains final cycle information from run.
Details
Contains the results of makeFinal, which is a list suitable for analysis and plotting of final cycle population values.
However, if you wish to manipulate the entire data frame,
use the data field, e.g. probs <- run1$final$data$popPoints %>% select(prob).
This will select the probabilities of the support points. If
you are unfamiliar with the %>% pipe function, please type help("%>%", "magrittr")
into the R console and look online for instructions/tutorials in tidyverse, a
powerful approach to data manipulation upon which Pmetrics is built.
Public fields
popPoints(NPAG only) Data frame of the final cycle joint population density of grid points with column names equal to the name of each random parameter plus prob for the associated probability of that point
popMeanThe final cycle mean for each random parameter distribution
popSDThe final cycle standard deviation for each random parameter distribution
popCVThe final cycle coefficient of variation (SD/Mean) for each random parameter distribution
popVarThe final cycle variance for each random parameter distribution
popCovThe final cycle random parameter covariance matrix
popCorThe final cycle random parameter correlation matrix
popMedianThe final cycle median values for each random parameter, i.e. those that have unknown mean and unknown variance, both of which are fitted during the run
popRanFixThe final cycle median values for each parameter that is random but fixed to be the same for all subjects, i.e. unknown mean, zero variance, with only mean fitted in the run
postPoints(NPAG only) Data frame of posterior population points for each of the first 100 subject, with columns id, point, parameters and probability. The first column is the subject, the second column has the population point number, followed by the values for the parameters in that point and the probability.
postMeanA nsub x npar data frame containing the means of the posterior distributions for each parameter.
postSDA nsub x npar data frame containing the SDs of the posterior distributions for each parameter.
postVarA nsub x npar data frame containing the variances of the posterior distributions for each parameter.
postCovNPAG only: An array of dimensions npar x npar x nsub that contains the covariances of the posterior distributions for each parameter and subject.*
postCorNPAG only: An array of dimensions npar x npar x nsub that contains the correlations of the posterior distributions for each parameter and subject.
postMedA nsub x npar data frame containing the medians of the posterior distributions for each parameter.*
shrinkageA data frame with the shrinkage for each parameter.
popVaris comprised of variance(EBE) + variance(EBD), where EBE is the Empirical Bayes Estimate or mean of the posterior distribution for the parameter. EBD is the Empirical Bayes Distribution, or the full Bayesian posterior distribution. In other words, if Bayesian posterior distributions are wide for a given parameter due to sparse or uninformative sampling, then most of the population variance is due to this variance and shrinkage of the EBE variance is high because individual posterior estimates shrink towards the population mean.gridpts(NPAG only) Initial number of support points
nsubNumber of subjects
abMatrix of boundaries for random parameter values
dataA data frame combining all the above fields as its columns
Methods
Method new()
Create new object populated with final cycle information
Usage
PM_final$new(final)Arguments
finalThe parsed output from makeFinal.
Method summary()
Summary method
Arguments
...Arguments passed to summary.PMfinal
Details
See summary.PMfinal.