Soil Gas Analysis and Flux Modeling

Documentation for package ‘ConFluxPro’ version 1.3.1

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-- A --

alternate	Run parameter variation
alternate_model	Run parameter variation
as_cfp_dat	Model input data
as_cfp_dat.cfp_dat	Model input data

-- B --

base_dat	Example cfp_dat object
bootstrap_error	Estimate model uncertainty
bootstrap_error.cfp_altres	Estimate model uncertainty
bootstrap_error.cfp_dat	Estimate model uncertainty
bootstrap_error.cfp_fgmod	Estimate model uncertainty
bootstrap_error.cfp_pfmod	Estimate model uncertainty

-- C --

calculate_bootstrap_error	Estimate model uncertainty
calculate_bootstrap_error.cfp_pfmod	Estimate model uncertainty
cfp_altapply	Apply a function over a list of models
cfp_dat	Model input data
cfp_DSD0_optim	Extract elements from an object
cfp_evenness_factor	Extract elements from an object
cfp_fgmod	Model frame for fg_flux
cfp_fgres	Model result of fg_flux
cfp_funs	Extract elements from an object
cfp_gasdata	Soil gas concentration data
cfp_gasdata.cfp_dat	Soil gas concentration data
cfp_gasdata.data.frame	Soil gas concentration data
cfp_gases	Extract elements from an object
cfp_id_cols	Extract elements from an object
cfp_known_flux_factor	Extract elements from an object
cfp_layered_profile	Object for layered soil profiles
cfp_layers_altmap	Extract elements from an object
cfp_layers_different	Extract elements from an object
cfp_layers_from	Extract elements from an object
cfp_layers_map	Model layers
cfp_layers_map.cfp_dat	Model layers
cfp_layers_map.data.frame	Model layers
cfp_modes	Extract elements from an object
cfp_n_runs	Extract elements from an object
cfp_og_model	Extract elements from an object
cfp_og_model.cfp_altres	Extract elements from an object
cfp_param	Extract elements from an object
cfp_parameter	Get parameter descriptions and units
cfp_params_df	Extract elements from an object
cfp_pfmod	Model frame for pro_flux
cfp_pfres	Model result of pro_flux
cfp_profile	Object for soil profiles
cfp_runmap_type	Extract elements from an object
cfp_run_map	Create a run plan for parameter variation
cfp_soilphys	Soil physical parameters data
cfp_soilphys.cfp_dat	Soil physical parameters data
cfp_soilphys.data.frame	Soil physical parameters data
cfp_zero_flux	Extract elements from an object
cfp_zero_limits	Extract elements from an object
check_soilphys	Check for complete and correct soil physical parameters
combine_models	Combine models
combine_models.cfp_altres	Combine models
combine_models.list	Combine models
combine_models_by_reference	Combine models
complete_soilphys	(Re-)calculate soil physical parameters

-- D --

D0_massman	Calculate D0
deepflux	Extract flux rates from deep soil
depth_structure	Unique layers depths
depth_structure.cfp_dat	Unique layers depths
depth_structure.cfp_layered_profile	Unique layers depths
depth_structure.cfp_profile	Unique layers depths
discretize_depth	Interpolate over depth to layered profile
discretize_depth.cfp_profile	Interpolate over depth to layered profile
discretize_depth.data.frame	Interpolate over depth to layered profile
DSD0	Calculate DSD0
DSD0_currie	Calculate DSD0
DSD0_linear	Calculate DSD0
DSD0_millington_quirk	Calculate DSD0
DSD0_moldrup	Calculate DSD0

-- E --

efflux	Extract efflux rates
efflux.cfp_altres	Extract efflux rates
efflux.cfp_fgres	Extract efflux rates
efflux.cfp_pfres	Extract efflux rates
error_concentration	Estimate model error
error_concentration.cfp_altres	Estimate model error
error_concentration.cfp_fgres	Estimate model error
error_concentration.cfp_pfres	Estimate model error
error_efflux	Estimate model error
error_efflux.cfp_altres	Estimate model error
error_efflux.cfp_fgres	Estimate model error
error_efflux.cfp_pfres	Estimate model error
error_funs	Estimate model error
evaluate_models	Evaluate model runs for calibration
evaluate_models.cfp_altres	Evaluate model runs for calibration
extractors	Extract elements from an object

-- F --

fg_flux	Flux-gradient method
fg_flux.cfp_dat	Flux-gradient method
fg_flux.cfp_fgmod	Flux-gradient method
fg_flux.cfp_fgres	Flux-gradient method
filter	Filter profiles
filter.cfp_dat	Filter profiles
flux	Re-run model

-- G --

gasdata

Example soil CO2 concentrations

-- H --

harm	Harmonic mean

-- L --

layers_map

Example cfp_layers_map object

-- M --

make_bootstrap_model	Estimate model uncertainty
make_bootstrap_model.cfp_pfmod	Estimate model uncertainty

-- N --

nrmse	(Normalized) root mean square error
n_groups	Get number of groups/profiles
n_profiles	Get number of groups/profiles

-- P --

plot_profile	Plot profiles
production	Extract production rates
pro_flux	Inverse model of production profiles
pro_flux.cfp_dat	Inverse model of production profiles
pro_flux.cfp_pfmod	Inverse model of production profiles
pro_flux.cfp_pfres	Inverse model of production profiles

-- R --

rmse	(Normalized) root mean square error
run_map	run_map

-- S --

scale_min_median	Scale a vector by its min and median
season	Get season of a date-time
sobol_calc_indices	Calculate sobol indices
sobol_run_map	Create a run plan for sobol indice calculation
sobol_run_map.cfp_dat	Create a run plan for sobol indice calculation
sobol_run_map.cfp_run_map	Create a run plan for sobol indice calculation
soildiff	Example soil diffusion models
soilphys	Example cfp_soilphys object
soiltemp	Example soil temperature
soilwater	Example soil water content

-- U --

unique_gases

Get the unique gases of an object