Function reference • Isoreader

Reading IRMS data files These functions provide the core functionality for the package. They parse the raw isotope ratio mass spectrometry data files.
`iso_read_continuous_flow()`	Load continuous flow data
`iso_read_dual_inlet()`	Load dual inlet data
`iso_read_scan()`	Load scan data
`iso_reread_files()` `iso_reread_all_files()` `iso_reread_changed_files()` `iso_reread_outdated_files()` `iso_reread_problem_files()` `iso_reread_storage()` `iso_reread_archive()`	Re-read iso_files
Data wrangeling These functions provide tools to easily filter files and update file information. The package also provides a few functions that expand on useful text processing provided by the readr package (summarized in `extract_data`).
`iso_add_file_info()`	Add additional file information
`iso_rename_file_info()`	Rename file info columns
`iso_select_file_info()`	Select file info columns
`iso_mutate_file_info()`	Mutate file info
`iso_parse_file_info()`	Parse file info
`iso_set_file_root()`	Set iso file directory root
`iso_filter_files()`	Filter iso_files
`extract_data`	Overview of text data extraction functions
`extract_substring()`	Extract a substring from text
`extract_word()`	Extract words from text
Data units These functions provide tools to work easily with numbers that have units associated with them.
`iso_with_units()` `iso_double_with_units()`	Generate values with units
`iso_is_double_with_units()`	Check if a value has units
`iso_get_units()`	Retrieve number units
`iso_strip_units()`	Strip units from variables
`iso_make_units_explicit()`	Make units explicit
`iso_make_units_implicit()`	Make units implicit
`iso_format()`	Format values
Aggregating the data These functions aggregate the data collected from one or many IRMS data files.
`iso_get_data_summary()`	Get data summary
`iso_get_all_data()`	Aggregate all isofiles data
`iso_get_file_info()`	Aggregate file info
`iso_get_raw_data()`	Aggregate raw data
`iso_get_bgrd_data()`	Aggregate background data
`iso_get_vendor_data_table()`	Aggregate vendor computed table data
`iso_get_resistors()`	Aggregate resistors from methods info
`iso_get_standards()`	Aggregate standards from methods info
Exporting/saving data: Feather, Excel, and R Data Storage These functions provide tools to save the data to specific file formats.
`iso_save()`	Save data to R Data Storage (.rds)
`iso_export_files_to_excel()`	Export data to Excel
`iso_export_files_to_feather()`	Export to feather
Package information and default parameters These functions provide information about the package capabilities, easy access to example files, and ways to set default parameters across the package.
`iso_get_supported_file_types()`	Supported file types
`iso_get_reader_example()` `iso_get_reader_examples()` `iso_get_reader_examples_folder()`	Example files
`iso_turn_reader_caching_on()` `iso_turn_reader_caching_off()`	Turn caching on/off
`iso_cleanup_reader_cache()`	Cleanup cached files
`iso_turn_info_messages_on()` `iso_turn_info_messages_off()` `iso_turn_datetime_warnings_on()` `iso_turn_datetime_warnings_off()`	Control information messages
`iso_set_default_read_parameters()`	Set default read options
`iso_get_default_reader_parameters()`	Get the current default parameters
Dealing with read problems
`iso_problem_functions`	Problem Functions Overview
`iso_has_problems()`	Check for parsing problems
`iso_get_problems_summary()`	Retrieve a summary of the problems
`iso_get_problems()`	Retrieve parsing problems
`iso_filter_files_with_problems()`	Filter out problematic files
File system functions Functions to find IRMS data files and root file paths.
`iso_expand_paths()`	Expand file paths
`iso_root_paths()`	Root paths
`iso_find_absolute_path_roots()`	Find roots for absolute paths
`iso_shorten_relative_paths()`	Shorten relative paths
Low-level IO, debugging, and development tools See the advanced vignette for details.
`iso_read_files()`	Core function to read isotope data files
`iso_register_dual_inlet_file_reader()` `iso_register_continuous_flow_file_reader()` `iso_register_scan_file_reader()`	Register file readers
`iso_is_file()` `iso_is_file_list()` `iso_is_object()` `iso_is_dual_inlet()` `iso_is_continuous_flow()` `iso_is_scan()` `iso_as_file_list()`	Isoreader data structure functions
`iso_turn_debug_on()` `iso_turn_debug_off()` `set_read_file_event_expr()` `set_finish_file_event_expr()`	Debugging functions
`iso_source_file_op_error()`	Throw source file operation error with useful debugging information for the file type.
`iso_get_source_file_structure()` `iso_print_source_file_structure()` `print(<binary_isodat_file>)`	Get source file and structure
`read_iso_file()`	Read individual iso file
`reread_iso_files()`	Re-read iso_files
`set_temp()`	Set temporary option
`print(<iso_file_list>)` `print(<iso_file>)` `print(<dual_inlet>)` `print(<continuous_flow>)` `print(<scan>)`	Isofile printing
`vec_arith(<iso_double_with_units>)`	vec_arith for iso_double_with_units
`vec_cast(<iso_double_with_units>)`	vec_cast for iso_double_with_units
`vec_ptype2(<iso_double_with_units>)`	vec_ptype2 for iso_double_with_units
Deprecated
`iso_get_data()` `iso_get_standards_info()` `iso_get_resistors_info()` `iso_export_to_excel()` `iso_export_to_feather()` `iso_omit_files_with_problems()`	These functions have been deprecated and will be removed in future versions of isoreader.

Reference

Reading IRMS data files

Data wrangeling

Data units

Aggregating the data

Exporting/saving data: Feather, Excel, and R Data Storage

Package information and default parameters

Dealing with read problems

File system functions

Low-level IO, debugging, and development tools

Deprecated