Fits Toxicokinetic Models to In Vivo PK Data Sets
Default method for AAFE()
Calculate absolute average fold error (AAFE)
AAFE()
Add various pkproto objects to a pk object
Default method for AFE()
Calculate average fold error
AFE()
Akaike information criterion
Analytic AUC for 1-compartment model with specific clearance
Analytic AUC for 1-compartment model
Analytical AUC for the 2-compartment model
AUC for flat model
Automatically select new time units
Bayesian information criterion
Calculate Hessian
Non-compartmental analysis
Calculate RMSE (root mean squared error)
Calculate r-squared for observed vs. predicted values
Calculate parameter SDs
Check methods
Check models
Check new data
Check 1-compartment model parameters
Check 1-compartment model parameters
Check 2-compartment model parameters
Check flat model parameters
Default method for checking required status
Check required status
Check required status
Coefficient standard deviation default
Get coefficient standard deviations
Coefficient standard deviations
Get coefficients
Combined standard deviation
Default method for compare_models()
Model comparison for [pk()] objects
Model comparison
Get concentration scalings
Convert sample mean and SD to log10-scale
Helper function to convert time units
Analytical 1-compartment model with specific clearance
Analytical 1-compartment model
Time derivative of analytical 2-compartment model
Analytical 2-compartment model
Flat model
Default method for data_summary()
Data summary for a pk object
data_summary()
Log-normal distribution density function for summary data
Normal distribution density function for summary data
do_data_info default method
calculate summary data info
do_data_info generic
do_fit default method
Do fitting
Fitting
do_prefit default method
Do pre-fitting
Prefitting
do_preprocess default method
Do pre-processing
Preprocess data generic
Subtract a pkproto object from a pk object
Default method for eval_tkstats()
Evaluate TK statistics
eval_tkstats()
Facet a PK fit
Fill parameters for 1-compartment model with specific clearance
Fill parameters for 1-compartment model
Fill parameters for 2-compartment model
Fill parameters for flat model
Fit a single group of data
fold_error default method
Fold errors
Fold error
Default method for get_data_group()
Get data grouping
get_data_group()
Default method for get_data_info()
Get data_info
get_data_info()
Default method for get_data_original()
Get data_original
get_data_original()
Default method for get_data_sigma_group()
Get data_sigma_group
get_data_sigma_group()
Default method for get_data_summary()
get_data_summary()
Default method for get_data()
Get data
get_data()
Get an elbow point
Default method for get_error_group()
Get error group
get_error_group()
Default method for get_fit()
Get fits from a pk object
get_fit()
Default method for get_hessian()
Get Hessian matrixes
get_hessian()
Default method for get_mapping()
Get mapping
get_mapping()
Default method for get_nca()
Get NCA
get_nca()
Get parameters for 1-compartment model with clearance assumption
Get parameters for 1-compartment model with clearance assumption
Get parameters for 1-compartment model
Get parameters for 2-compartment model
Get parameters to be optimized for flat model
Find the peak of a data series
Default method for get_prefit()
Get prefit
get_prefit()
Default method for get_scale_conc()
Get scale_conc
get_scale_conc()
Default method for get_scale_time()
Get scale_time
get_scale_time()
Default method for get_settings_data_info()
Get settings_data_info
get_settings_data_info()
Default method for get_settings_optimx()
Get settings_optimx
get_settings_optimx()
Default method for get_settings_preprocess()
Get settings_preprocess
get_settings_preprocess()
Get starting values for 1-compartment model with specific clearance
Get starting values for 1-compartment model with specific clearance
Get starting values for 1-compartment model
Get starting values for 2-compartment model
Get starting values for flat model
Default method for get_stat_error_model()
Get stat_error_model
get_stat_error_model()
Default method for get_stat_model()
Get stat_model
get_stat_model()
Default method for getting status
Check status of a pk object
Get status
Default method for get_tkstats()
Get TK stats
Get TK stats
Default method for get_winning_model()
Get winning model
get_winning_model()
Inverse diagonal, method 1
Inverse diagonal, method 2
Ignore unused imports
invivoPKfit: A package to fit model parameters to in vivo data
Check whether an object is of class pk_faceted
Is an object class pk_scales?
Check whether an object is of class pk
Is an object pkproto?
Log-likelihood
Log-likelihood
New mapping
Log10-scaled midpoint
Default method for nca()
NCA for a pk object
nca()
Add pkproto object default method
Add facet_data()
Add a pk_scales object to a pk object.
Add a pk_settings_data_info object.
Add a pk_settings_optimx object.
Add a pk_settings_preprocess object.
Add a pk_stat_error_model object.
Add a pk_stat_model object.
Add a pkproto object to a pk object
Add an uneval object
Create a new pk_model object
Subtract pkproto object default method
Subtract a pk_stat_model object.
Subtract a pkproto object from a pk object
Create a new pk object
Plot a [pk()] object.
Add a pkproto object to a pk object
Get predictions
Print a user-friendly version of a pk object
Convert invivoPKfit output table names to the CvTdb names
Get residuals
Root mean squared error (RMSE) default method
Root mean squared error
Root mean squared error (RMSE)
Helper function for calculating percentages of count data, by row
Default method for rsq()
Calculate R-squared for observed vs. predicted values
rsq()
Scale concentrations
Scale times
Data info settings
optimx optimizer settings
Data preprocessing settings
Error model
Add PK model(s) to be fitted
Subtract various pkproto objects from a pk object
Print summary of a pk object
Toxicokinetic statistics for 1-compartment model with specific clearan...
Toxicokinetic statistics for 1-compartment model
Toxicokinetic statistics for 1-compartment model
TK stats for flat model
Transformed parameters for 2-compartment model
Default method for twofold_test()
Evaluate whether data and predictions are within two-fold of mean or c...
twofold_test()
Takes in vivo toxicokinetic concentration-time data and fits parameters of 1-compartment and 2-compartment models for each chemical. These methods are described in detail in "Informatics for Toxicokinetics" (2025).