preMetabolizer: Prepare data for stream metabolism modeling

preMetabolizer provides helpers for building the environmental time series commonly needed before fitting stream metabolism models. It includes tools to download external meteorological and elevation data, align irregular time series, convert hydrology and atmospheric units, calculate water and gas chemistry quantities, and assemble light and pressure inputs for streamMetabolizer.

Coordinates

Functions that require locations use latitude and longitude in decimal degrees. Latitude ranges from -90 to 90, longitude ranges from -180 to 180, and western longitudes are negative.

Main workflows

• Find and download meteorological data with get_noaa_stations(), closest_noaa_stations(), get_ghcnh(), ncei_data(), get_nasa_data(), and ks_meso_timeseries(). Retrieve mesonet station observations with iem_networks(), iem_current(), iem_obhistory(), tex_meso_stations(), tex_meso_current(), and tex_meso_timeseries().

• Retrieve or calculate site context with get_usgs_elev(), correct_bp(), convert_UTC_to_solartime(), and calc_light().

• Prepare model inputs with even_timesteps(), calc_O2sat(), calc_water_height(), and the built-in example datasets.

• Summarize and check data with flag_z(), calc_exceedance_prob(), calc_cv(), and calc_bin_width().

Built-in datasets

french_creek contains 5-minute dissolved oxygen and water temperature observations for a complete metabolism-preparation example. kings_discharge contains daily USGS discharge, gage height, and water temperature observations for flow-duration and seasonal summaries.

See also

streamMetabolizer::metab(), https://connorb.github.io/preMetabolizer/, and https://github.com/ConnorB/preMetabolizer/issues.

Author

Maintainer: Connor Brown ConnorBrown1996@gmail.com (ORCID)

Authors:

• Connor Brown ConnorBrown1996@gmail.com (ORCID)