Template Model Builder: A General Random Effect Tool Inspired by 'ADMB'

Documentation for package ‘TMB’ version 1.9.1

Help Pages

as.list.sdreport	Convert estimates to original list format.
benchmark	Benchmark parallel templates
checkConsistency	Check consistency and Laplace accuracy
compile	Compile a C++ template to DLL suitable for MakeADFun.
config	Get or set internal configuration variables
confint.tmbprofile	Profile based confidence intervals.
dynlib	Add dynlib extension
FreeADFun	Free memory allocated on the C++ side by 'MakeADFun'.
gdbsource	Source R-script through gdb to get backtrace.
GK	Gauss Kronrod configuration
MakeADFun	Construct objective functions with derivatives based on a compiled C++ template.
newton	Generalized newton optimizer.
newtonOption	Set newton options for a model object.
normalize	Normalize process likelihood using the Laplace approximation.
oneStepPredict	Calculate one-step-ahead (OSA) residuals for a latent variable model.
openmp	Control number of OpenMP threads used by a TMB model.
plot.parallelBenchmark	Benchmark parallel templates
plot.tmbprofile	Plot likelihood profile.
precompile	Precompile the TMB library in order to speed up compilation of templates.
print.backtrace	Source R-script through gdb to get backtrace.
print.checkConsistency	Print output from 'checkConsistency'
print.sdreport	Print brief model summary
Rinterface	Create minimal R-code corresponding to a cpp template.
runExample	Run one of the test examples.
runSymbolicAnalysis	Run symbolic analysis on sparse Hessian
sdreport	General sdreport function.
SR	Sequential reduction configuration
summary.checkConsistency	Summarize output from 'checkConsistency'
summary.sdreport	summary tables of model parameters
template	Create cpp template to get started.
tmbprofile	Adaptive likelihood profiling.
tmbroot	Compute likelihood profile confidence intervals of a TMB object by root-finding