Package index • preMetabolizer

Package overview

preMetabolizer preMetabolizer-package: preMetabolizer: Prepare data for stream metabolism modeling

Data access

Download and read meteorological and hydrological data from external sources.

ncei_data(): Get data from the NCEI Data Service API
ncei_datasets(): List available NCEI datasets
ncei_stations(): Search for NCEI weather stations
ncei_bbox(): Compute a bounding box around a point
cdo_datasets() cdo_datacategories() cdo_datatypes() cdo_locationcategories() cdo_locations() cdo_stations() cdo_data(): Query the NCEI Climate Data Online (CDO) Web Services v2 API
cdo_request_count() cdo_reset_request_count(): Inspect and reset the NCEI CDO session request counter
get_noaa_stations(): Get NOAA station information
closest_noaa_stations(): Find NOAA stations near a location
get_ghcnh(): Get GHCNh hourly observations
get_noaa_ghg(): Get NOAA global monthly mean greenhouse gas concentrations
get_nasa_data(): Download NASA POWER hourly data
get_usgs_elev(): Get elevation from the USGS Elevation Point Query Service
iem_networks(): Get Iowa Environmental Mesonet network identifiers
iem_stations() iem_station(): Get Iowa Environmental Mesonet station metadata
iem_current(): Get current Iowa Environmental Mesonet observations
iem_obhistory(): Get one day of Iowa Environmental Mesonet observations
iem_daily(): Get Iowa Environmental Mesonet daily summaries
ks_meso_vars(): Fetch Kansas Mesonet variable metadata
ks_meso_timeseries(): Get Kansas Mesonet time-series data
ks_meso_stations(): Get Kansas Mesonet station information
ks_meso_station_activity(): Get Kansas Mesonet station activity
ks_meso_most_recent(): Get most recent Kansas Mesonet data timestamp
ks_meso_fw13(): Get Kansas Mesonet FW13 data
tex_meso_stations(): Get TexMesonet station information
tex_meso_current(): Get current TexMesonet data
tex_meso_timeseries(): Get recent TexMesonet time-series data
read_shp(): Read a shapefile or zipped shapefile

Chemistry calculations

Calculate dissolved gas concentrations, solubility constants, and related thermodynamic quantities.

calc_O2sat(): Calculate dissolved oxygen saturation
calc_CO2sat(): Calculate dissolved carbon dioxide saturation
calc_CH4sat(): Calculate dissolved methane saturation
calc_N2Osat(): Calculate dissolved nitrous oxide saturation
calc_N2sat(): Calculate dissolved nitrogen saturation
calc_Arsat(): Calculate dissolved argon saturation
calc_CO2_molKg(): Calculate dissolved CO2 concentration in mol/kg
calc_CO2_mgL(): Calculate dissolved CO2 concentration in mg/L
calc_K0(): Calculate the CO2 solubility coefficient
calc_vapor_press(): Saturation vapor pressure of water
xCO2_to_pCO2(): Convert CO2 mole fraction to partial pressure
pCO2_to_xCO2(): Convert CO2 partial pressure to mole fraction

Physical property calculations

Calculate water density, depth from pressure, and solar radiation.

calc_water_density(): Calculate water density
calc_water_height(): Calculate water height from pressure
calc_par(): Calculate modeled photosynthetically active radiation

Statistical utilities

Descriptive statistics and outlier detection for time series data.

calc_bin_width(): Calculate histogram bin width
calc_cv(): Calculate the coefficient of variation
calc_mode(): Calculate the mode of a vector
calc_exceedance_prob(): Calculate flow exceedance probabilities
rcpp_calc_exceedance_prob(): Calculate flow exceedance probabilities with C++
flag_z(): Flag outliers with robust Z-scores

Unit conversion

Convert between common units used in hydrology and atmospheric science.

convert_flow(): Convert stream discharge between units
convert_pressure(): Convert barometric pressure between units
correct_bp(): Correct barometric pressure for elevation change

Time utilities

Work with meteorological seasons and solar time.

get_season(): Determine the astronomical season from a date
even_timesteps(): Fill missing rows in an even time series
convert_to_solar_time() convert_from_solar_time(): Convert a datetime to local solar time

Data

Built-in reference datasets.

french_creek: French Creek stream metabolism data
kings_discharge: Kings Creek daily water data