R: Interface to 'LibBi'

# Interface to 'LibBi'

## Documentation for package ‘rbi’ version 1.0.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Code demos. Use demo() to run them.
- Package NEWS
- Package README

## Help Pages

!=.bi_model | Check if two models are unequal
==.bi_model | Check if two models are equal
add_block | Add a block to a LibBi model
add_block.bi_model | Add a block to a LibBi model
attach_data | Attach a new file or data set to a 'libbi' object
attach_data.libbi | Attach a new file or data set to a 'libbi' object
bi_contents | Bi contents
bi_file_summary | NetCDF File Summary
bi_generate_dataset | Bi Generate Dataset
bi_model | Bi Model
bi_read | Bi Read
bi_write | Create (e.g., init or observation) files for LibBi
enable_outputs | Enable outputting variables in a 'bi_model'
Equals.bi_model | Check if two models are equal
Extract.bi_model | Subset model lines
Extract_assign.bi_model | Subset and replace model lines
extract_sample | Extract a sample from a 'LibBi' run.
filter | Using the LibBi wrapper to filter
filter.bi_model | Using the LibBi wrapper to filter
filter.libbi | Using the LibBi wrapper to filter
fix | Fix noise term, state or parameter of a libbi model
fix.bi_model | Fix noise term, state or parameter of a libbi model
flatten | Flatten list of data frames This function takes a list of data frames (such as, for example, returned by 'bi_read') and converts it to a flat data frame
generate_dataset | Generate Dataset
get_block | Get the contents of a block in a LibBi model
get_block.bi_model | Get the contents of a block in a LibBi model
get_const | Get constants in a LibBi model
get_dims | Get dimensions in a LibBi model
get_name | Get the name of a bi model
get_name.bi_model | Get the name of a bi model
get_traces | Get the parameter traces
insert_lines | Insert lines in a LibBi model
insert_lines.bi_model | Insert lines in a LibBi model
join | Join multiple 'libbi' objects
join.libbi | Join multiple 'libbi' objects
libbi | LibBi Wrapper
logLik | Using the LibBi wrapper to logLik
logLik.libbi | Using the LibBi wrapper to logLik
optimise | Using the LibBi wrapper to optimise
optimise.bi_model | Using the LibBi wrapper to optimise
optimise.libbi | Using the LibBi wrapper to optimise
predict | Using the LibBi wrapper to predict
predict.libbi | Using the LibBi wrapper to predict
print_log | Print the log file a 'libbi' object
read_libbi | Read results of a 'LibBi' run from an RDS file or from a folder. This completely reconstructs the saved 'LibBi' object
remove_lines | Remove line(s) and/or block(s) in a libbi model
remove_lines.bi_model | Remove line(s) and/or block(s) in a libbi model
remove_vars | Remove variables
replace_all | Replace all instances of a string with another in a model
replace_all.bi_model | Replace all instances of a string with another in a model
rewrite | Using the LibBi wrapper to rewrite
rewrite.bi_model | Using the LibBi wrapper to rewrite
rewrite.libbi | Using the LibBi wrapper to rewrite
run | Using the LibBi wrapper to launch LibBi
run.libbi | Using the LibBi wrapper to launch LibBi
sample | Using the LibBi wrapper to sample
sample.bi_model | Using the LibBi wrapper to sample
sample.libbi | Using the LibBi wrapper to sample
sample_obs | Sample observations from a LibBi model that has been run
save_libbi | Write results of a 'LibBi' run to an RDS file
save_libbi.libbi | Write results of a 'LibBi' run to an RDS file
set_name | Set the name of a bi model
set_name.bi_model | Set the name of a bi model
simulate | Using the LibBi wrapper to simulate
simulate.bi_model | Using the LibBi wrapper to simulate
simulate.libbi | Using the LibBi wrapper to simulate
summary | Print summary information about a 'libbi' object
summary.libbi | Print summary information about a 'libbi' object
Unequals.bi_model | Check if two models are unequal
update | Update a libbi object
update.libbi | Update a libbi object
var_names | Get variable names in a LibBi model
write_model | Writes a bi model to a file.
write_model.bi_model | Writes a bi model to a file.
write_model.libbi | Writes a bi model to a file.
[.bi_model | Subset model lines
[<-.bi_model | Subset and replace model lines
`!=.bi_model` | Check if two models are unequal
`==.bi_model` | Check if two models are equal
`[.bi_model` | Subset model lines
`[<-.bi_model` | Subset and replace model lines