depthharm: A function for harmonizing soil property between uniform...

In soilassessment: Soil Health Assessment Models for Assessing Soil Conditions and Suitability

A function for harmonizing soil property between uniform depth intervals in observation pits

Description

A function to harmonize soil property between uniform depth intervals in a set of observation pits

Usage

depthharm(soildata, var.name, lam, d)

Arguments

soildata	soil data containing soil property to be harmonized and observed depth intervals
var.name	name of target variable or soil property to be harmonized
lam	a factor to improve prediction of target soil property between sampled depths
d	target uniform depth intervals for harmonizing the target soil propert

Details

Input soil data must be a dataframe or class of ProfileCollection. The smoothing factor improves prediction of the target soil propert. Its default value is 0.1. Desired depth intervals are seperated by comma and should be choosen between minimum and maximum depths in the soil data.

Value

The output is a list of two dataframes: harmonized.d is a dataframe of harmonized soil property at target depth intervals. obs_n_pred is ugmented dataframe of observed and harmonized soil properties

References

Bishop, T.F.A., McBratney, A.B., Laslett, G.M., 1999. Modelling soil attribute depth functions with equal-area quadratic smoothing splines. Geoderma 91, 27–45. https://doi.org/10.1016/S0016-7061(99)00003-8

Malone, B.P., McBratney, A.B., Minasny, B., Laslett, G.M., 2009. Mapping continuous depth functions of soil carbon storage and available water capacity. Geoderma 154, 138–152. https://doi.org/10.1016/j.geoderma.2009.10.007

Ponce-Hernandez, R., Marriott, F.H.C., Beckett, P.H.T., 1986. An improved method for reconstructing a soil profile from analyses of a small number of samples. Journal of Soil Science 37, 455–467. https://doi.org/10.1111/j.1365-2389.1986.tb00377.x

Examples

library(aqp)
library(plyr)
library(sp)
x=c(rep(2.12,4),rep(2.05,4))
y=c(rep(9.34,4),rep(8.17,4))
pit=c(rep(1,4),rep(2,4))
depthcode=c(1,2,3,4,1,2,3,4)
upper=c(0,18,25,35,0,12,33,50)
lower=c(10,25,35,67,12,33,50,100)
pH=c(6.7,5.5,5.1,6.7,6.4,5.8,5.3,5.0)
df=data.frame(pit,x,y,upper,lower,depthcode,pH)
lat=df$x;lon=df$y;id=df$pit;top=df$upper;
bottom=df$lower;horizon=df$depthcode;Varn=df$pH

soildata <- join(data.frame(id, top, bottom, Varn, horizon),
              data.frame(id, lat, lon), type='inner')
depths(soildata) <- id ~ top + bottom
site(soildata) <- ~ lat + lon
initSpatial(soildata, crs = "EPSG:4326") <- ~ lat + lon
depth.s = depthharm(soildata, var.name= "Varn",
lam=0.01,d = t(c(0,10,40,80,100,150)))
plot(soildata, color= "Varn", name="horizon")

soilassessment documentation built on April 12, 2025, 9:13 a.m.