estimate_oc {BlueCarbon}R Documentation

Estimate organic carbon content

Description

Estimate organic carbon from organic matter values

Usage

estimate_oc(
  df = NULL,
  core = "core",
  site = "site",
  ecosystem = "ecosystem",
  species = "species",
  om = "om",
  oc = "oc"
)

Arguments

df

A tibble or data.frame containing all the data. Must have at least five columns (see arguments below).

core

Character Name of the column with the id of the core to which the sample belongs

site

Character Name of the column reporting sample site.

ecosystem

Character Name of the column reporting ecosystem type. To apply published equations for OC estimation, ecosystem names should be either "Salt Marsh", "Seagrass" or "Mangrove".

species

Character Name of the column reporting the main species in the site.

om

Character Name of the column reporting organic matter values.

oc

Character Name of the column reporting organic carbon values.

Details

Estimation of organic Carbon is done by means of linear regressions on log(organic carbon) ~ log(organic matter), which return estimated organic carbon value for each organic matter value provided. If there is a value for organic carbon for that sample it returns the same value; otherwise, it estimates organic carbon from a model fitted to that site, or a model fitted to that species, or else a model fitted to that ecosystem. If there are too few samples (<10) to build a reliable model or the model fit is too poor (r2 < 0.5), estimate_oc() uses the equations in Fourqurean et al. (2012) doi:10.1038/ngeo1477 for seagrasses, Maxwell et al. (2023) doi:10.1038/s41597-023-02633-x for salt marshes and PiƱeiro-Juncal (in prep.) for mangroves to estimate the organic carbon.

Value

The initial tibble or data.frame with three new columns:

In addition, a plot with the relationship between organic matter and estimated organic carbon values.

Examples

bluecarbon_decompact <- decompact(bluecarbon_data)
out <- estimate_oc(bluecarbon_decompact)
head(out$data)
out$models

[Package BlueCarbon version 0.1.0 Index]