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nonmem2R (version 0.2.4)

Loading NONMEM Output Files with Functions for Visual Predictive Checks (VPC) and Goodness of Fit (GOF) Plots

Description

Loading NONMEM (NONlinear Mixed-Effect Modeling, ) and PSN (Perl-speaks-NONMEM, ) output files to extract parameter estimates, provide visual predictive check (VPC) and goodness of fit (GOF) plots, and simulate with parameter uncertainty.

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Version

Install

install.packages('nonmem2R')

Monthly Downloads

388

Version

0.2.4

License

Unlimited

Maintainer

Magnus Astrand

Last Published

April 14th, 2022

Functions in nonmem2R (0.2.4)

StatDnorm

ggproto for stat_dnorm
basic.eta.GOF

Histogram and/or QQ-norm GOF for ETA's
basic.GOF4

Basic 4- and 6-panel GOF
grid.sim.internal1

Internal function
qqnormGOF

QQ-norm GOF
grid.sim.internal2

Internal function
do.multi.GOF

Multiple Y vs single X GOF-plot
do.one.GOF

X-Y GOF-plot
StatQQVPC

ggproto for stat_QQVPC
StatQQnorm

ggproto for stat_QQnorm
extToTable

Compile parameter table suitable for reports
position_scale

Position for scaling y
print.extToTable

Print function for compiled summary information of class extToTable
extTransform

Internal package function
stat_QQrefline

Add reference line to Quantile-Quantile Plots
stat_corr

Adding correlation to x-y plots
vpcfig3

Visual Predictive Check (VPC) based on raw Perl-speaks-NONMEM (PsN) generated VPC files.
readVpc

Internal package function
add.caption

Add caption to ggplot object
StatQQrefline

ggproto for stat_QQrefline
do.cat.GOF

Y vs categorical X GOF-plot
get.model.path

Get and set model.path
do.individual.GOF

Individual GOF-plots
PositionScale

ggproto for position_scale
StatCorr

ggproto for stat_corr
sumoR

Compile summary information for NONMEM model based on the lst file, ext file, and the cov file.
sumoRU

Internal package function
grid.sim

Combine fix grid and simulated grid based on multivariate normal distribution
StatHmedian

ggproto for stat_hmedian
StatHmean

ggproto for stat_hmean
covload

Load the covariance matrix from a nonmem .cov output file.
print.modload

Print function for loaded mod file
covload.sub.table

Internal package function
eta.cov.GOF

Covariate and pairs ETA GOFs
print.sumoR

Print function for compiled summary information of class sumoR
extload

Load final parameter values from a nonmem .ext output file.
merge2GOF

Merging 2, 4, or 6 GOF's into one graph
extload.sub.table

Internal package function
extFormat

Internal package function
stat_hmean

Horizontal reference at mean
modload

Show model file
stat_hmedian

Horizontal reference at median
systemPSN

Run qpsn system call
test.grid.sim

Function for testing grid.sim and compare with rmvnorm
stat_denx

Density for x in x-y plot
stat_dnorm

Normal density
get.GOF.dictionary

Get, set, and modify the global (or local) GOF parameters and GOF dictionary for labels
grid.sim.internal3

Internal function
stat_QQVPC

Add VPC confidence interval for Quantile-Quantile Plots
histGOF

Histogram GOF
vpcfig

Visual Predictive Check (VPC) based on Perl-speaks-NONMEM (PsN) generated VPC files (lattice version).
get.label

Labels for known NONMEM variables
stat_QQnorm

Quantile-Quantile Plots
vpcfig2

Visual Predictive Check (VPC) based on Perl-speaks-NONMEM (PsN) generated VPC files (ggplot2-version).
StatDenx

ggproto for stat_denx