# example data
data("jacobs2000")
# fully populated
plotSPC(jacobs2000, name.style = 'center-center',
cex.names = 0.8, color = 'time_saturated')
# missing some data
plotSPC(jacobs2000, name.style = 'center-center',
cex.names = 0.8, color = 'concentration_color')
# very nearly complete
plotSPC(jacobs2000, name.style = 'center-center',
cex.names = 0.8, color = 'matrix_color')
# variables to consider
v <- c('time_saturated', 'concentration_color', 'matrix_color')
# compute data completeness by profile
# ignore 2C horizons
jacobs2000$data.complete <- evalMissingData(
jacobs2000,
vars = v,
method = 'relative',
p = '2C'
)
jacobs2000$data.complete.abs <- evalMissingData(
jacobs2000,
vars = v,
method = 'absolute',
p = '2C'
)
# compute data completeness by horizon
# ignore 2C horizons
jacobs2000$hz.data.complete <- evalMissingData(
jacobs2000,
vars = v,
method = 'horizon',
p = '2C'
)
# "fraction complete" by horizon
plotSPC(
jacobs2000, name.style = 'center-center',
cex.names = 0.8, color = 'hz.data.complete'
)
# rank on profile completeness
new.order <- order(jacobs2000$data.complete)
# plot along data completeness ranking
plotSPC(
jacobs2000, name.style = 'center-center',
cex.names = 0.8, color = 'hz.data.complete',
plot.order = new.order
)
# add relative completeness axis
# note re-ordering of axis labels
axis(
side = 1, at = 1:length(jacobs2000),
labels = round(jacobs2000$data.complete[new.order], 2),
line = 0, cex.axis = 0.75
)
# add absolute completeness (cm)
axis(
side = 1, at = 1:length(jacobs2000),
labels = jacobs2000$data.complete.abs[new.order],
line = 2.5, cex.axis=0.75
)
# label axes
mtext('Relative\nCompleteness', side = 1, at = 0.25, line = 0.25, cex = 0.8)
mtext('Absolute\nCompleteness (cm)', side = 1, at = 0.25, line = 2.75, cex = 0.8)
x <- fetchKSSL(series = 'pierre')
par(mar = c(0, 0, 3, 2))
plotSPC(x, color = 'clay', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
plotSPC(x, color = 'cec7', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
plotSPC(x, color = 'estimated_oc', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
plotSPC(x, color = 'ph_h2o', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
plotSPC(x, color = 'db_13b', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
par(mar = c(1, 0, 3, 2))
plotSPC(x, color = 'ph_h2o', width = 0.3, name.style = 'center-center', label = 'pedon_completeness_index')
.b <- x[, , .LAST, .BOTTOM]
text(x = 1:length(x), y = .b, labels = x$pi, cex = 0.85, pos = 1)
mtext('Profile Information Index (bytes)', side = 1, line = -0.5)
v <- c('clay', 'db_13b', 'cec7', 'ph_h2o')
x$rel.not.missing <- evalMissingData(x, vars = v, method = 'relative')
x$abs.not.missing <- evalMissingData(x, vars = v, method = 'absolute')
x$hz.not.missing <- evalMissingData(x, vars = v, method = 'horizon')
o <- order(x$rel.not.missing)
plotSPC(x, color = 'hz.not.missing', width = 0.33, name.style = 'center-center', label = 'pedon_completeness_index', plot.order = o)
text(x = 1:length(x), y = .b[o], labels = round(x$rel.not.missing[o], 2), cex = 0.85, pos = 1)
mtext('Relative Non-Missing Fraction', side = 1, line = -0.5)
o <- order(x$abs.not.missing)
plotSPC(x, color = 'hz.not.missing', width = 0.33, name.style = 'center-center', label = 'pedon_completeness_index', plot.order = o)
text(x = 1:length(x), y = .b[o], labels = x$abs.not.missing[o], cex = 0.85, pos = 1)
mtext('Absolute Non-Missing (cm)', side = 1, line = -0.5)
