Interface to 'LibBi'

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Documentation for package ‘rbi’ version 1.0.0

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!=.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