Tools to Calibrate and Work with NEON Atmospheric Isotope Data

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Documentation for package ‘NEONiso’ version 0.7.2

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

calculate_12CO2	Calculate 12C-CO2 Mole Fractions
calculate_13CO2	Calculate 13C-CO2 Mole Fractions
calibrate_ambient_carbon_gainoffset	Calibrate ambient carbon isotope data using gain-and-offset method
calibrate_ambient_carbon_linreg	Calibrate ambient carbon isotope data using linear regression
calibrate_ambient_water_linreg	calibrate_ambient_water_isotopes
calibrate_carbon	Calibrate NEON carbon isotope data using validation data sets.
calibrate_water	Calibrate NEON water isotope ratios using validation data sets.
carbon_regression_plots	Make plots of carbon calibration data for debugging
convert_NEONhdf5_to_POSIXct_time	Convert NEON HDF5 file time to POSIXct
convert_POSIXct_to_NEONhdf5_time	Convert a POSIXct object to the format used in NEON HDF5 files
correct_carbon_ref_cval	correct_carbon_ref_cval
correct_carbon_ref_output	Correct carbon ref output
delta_to_R	Converts delta value to heavy-to-light isotope ratio
estimate_calibration_error	Produce estimates of the calibration error.
extract_carbon_cal_data	Extract only the data corresponding to validation/calibration time periods.
extract_water_calibration_data	Extract only the data corresponding to validation/calibration time periods.
filter_median_brock86	Apply a median absolute deviation filter
fit_carbon_regression	Estimate slope/intercept of carbon isotope calibration regression
fit_water_regression	Estimate slope/intercept of water isotope calibration regression
get_Rstd	Return heavy-to-light isotope ratio of primary standard.
ingest_data	Ingest and stack variables needed in calibration.
loocv	Leave-one-out cross validation
manage_local_EC_archive	Manage a local eddy covariance (EC) data archive.
restructure_carbon_variables	Restructure ingested variables for the carbon isotope system.
restructure_variables	Restructures data.frames imported by ingest_data to shorten variable names and Wrapper function around restructure_carbon_variables and restructure_water_variables.
restructure_water_variables	Restructure ingested variables for the water isotope system.
R_to_delta	Convert heavy-to-light isotope ratio to delta values.
select_daily_reference_data	Select validation data corresponding to a particular day
setup_output_file	Structure a new HDF5 file
swap_standard_isotoperatios	swap_standard_isotoperatios
terrestrial_core_sites	List terrestrial core sites
terrestrial_gradient_sites	List terrestrial gradient sites
validate_analyte	Standardize analyte names
validate_output_file	Validate output file.
water_isotope_sites	List sites with water vapor isotope ratios.
write_carbon_ambient_data	Write calibrated carbon ambient data to file
write_carbon_calibration_data	Write carbon calibrations to file
write_water_ambient_data	Write calibrated ambient water isotope ratio observations to file.
write_water_calibration_data	Write water calibration parameters to file