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fig2_gmwl_lmwl_intensive_sampling.R
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library(ggplot2)
library(RColorBrewer)
# Check your working directory
wd <- setwd("C:/Users/iotte/Desktop/III_isoIntensive")
## Read data
df <- read.csv2("iso_test_traject.csv", header = T, sep = ";")
df$date_sample <- as.Date(df$date_sample)
#summary(lm(dD_H ~ d18_16, data = sub), na.rm = TRUE)
apr <- subset(df, df$wet30dry30 == "w1")
dec <- subset(df, df$wet30dry30 == "d2")
##Preparation for plotting stuff
# color id for plotting
#col.id <- c("#6a3d9a", "#a6cee3", "#1f78b4", "#b2df8a", "#33a02c", "#ff7f00",
# "#fdbf6f", "#6a3d9a", "#b15928", "#ffff99", "#e31a1c")
col.id <- c("#6a3d9a", "#a6cee3", "#1f78b4", "#b2df8a", "#33a02c", "#ff7f00",
"#fdbf6f", "#b15928", "#e31a1c")
# sort legends
#leg <- c("fer0", "fpd0", "fpo0", "foc0", "foc6", "flm1", "nkw1", "hom4", "sav5", "mnp1", "mnp2")
leg <- c("fer0", "fpd0", "fpo0", "foc0", "foc6", "flm1", "nkw1", "hom4", "sav5")
######
sub = subset(df, df$plot_id_sp1 != "mnp1" &
df$plot_id_sp1 != "mnp2")
######
# plotting of raw values
lmwl.gmwl <- ggplot(sub, aes(x = d18_16, y = dD_H, color = plot_id_sp1,
shape = type)) +
geom_point() +
geom_abline(intercept = 13.62 , slope = 7.45 , linetype = 5) +
geom_abline(intercept = 10, slope = 8, color = "#636363") +
#annotate("text", label = ( expression(delta*D == 7.41 delta^{18}*O + 13.44),
# R = 0.95, x = -7.5, y = 32) +
xlim(-10.585, 5.49) +
ylim(-77.468, 41.615) +
xlab( expression(delta^{18}*O ~ "\u2030")) +
ylab( expression(delta*D ~ "\u2030")) +
#scale_shape_manual(values = c(15, 16, 17)) +
scale_shape_manual(values = c(0, 1, 2)) +
scale_color_manual(values = col.id, name = "Plot ID SP1", limits = leg,
labels = c("Fer0", "Fpd0", "Fpo0", "Foc0", "Foc6", "Flm1",
"Nkw1", "Hom4", "Sav5")) + #, "Mnp1", "Mnp2")) +
theme(
axis.text.x = element_text(color = "black"),
axis.text.y = element_text(color = "black"),
axis.title.x = element_text(color = "black"),
axis.title.y = element_text(color = "black"),
strip.text = element_text(face = "bold", size = rel(1.1)),
strip.background = element_rect(color = "black", fill = "white"),
panel.grid.major.x = element_blank(),
panel.grid.major.y = element_blank(),
panel.grid.minor = element_blank(),
panel.background = element_blank(),
panel.border = element_rect(color = "black", fill = NA),
legend.title = element_blank(),
legend.text = element_blank(),
legend.background = element_blank())
# print "lmwl.gmwl"
png("out_sia/iso_lmwl_gmwl_raw_presi_all_small_nw_unfilled_fresh.png", width = 10, height = 8, units = "cm",
res = 100, pointsize = 15)
print(lmwl.gmwl)
dev.off()
######
######
## Build mean values for every plot and each precipitation type
## and add GMWL and corresponding LMWL
d18.16.mns <- aggregate(sub$d18_16, by = list(sub$plot_id_sp1, sub$type),
FUN = "mean", na.rm = TRUE)
colnames(d18.16.mns) <- c("plot_id_sp1", "type", "d18_16_mn")
dD.H.mns <- aggregate(sub$dD_H, by = list(sub$plot_id_sp1, sub$type),
FUN = "mean", na.rm = TRUE)
colnames(dD.H.mns) <- c("plot_id_sp1", "type", "dD_H_mn")
iso.mns <- merge(d18.16.mns, dD.H.mns)
iso.mns.sm <- summary(lm(dD_H_mn ~ d18_16_mn, data = iso.mns))
# plotting of annual mean isotope values
lmwl.gmwl.ann <- ggplot(iso.mns, aes(x = d18_16_mn, y = dD_H_mn,
colour = plot_id_sp1, shape = type)) +
geom_point(size = 5) +
geom_abline(intercept = 9.72, slope = 6.25, linetype = 5) +
geom_abline(intercept = 10, slope = 8, color = "#636363") +
#annotate("text", label = ( expression(delta*D == 7.41 delta^{18}*O + 13.44), R = 0.95, x = -7.5, y = 32) +
xlab( expression(delta^{18}*O ~ "\u2030")) +
ylab( expression(delta*D ~ "\u2030")) +
scale_shape_manual(values = c(15, 16, 17)) +
scale_color_manual(values = col.id, limits = leg, name = "Plot ID SP1",
labels = c("Fer0", "Fpd0", "Fpo0", "Foc0", "Foc6", "Flm1",
"Nkw1", "Hom4", "Sav5")) + #, "Mnp1", "Mnp2")) +
theme(
axis.text.x = element_text(color = "black", size = rel(2)),
axis.text.y = element_text(color = "black", size = rel(2)),
axis.title.x = element_text(color = "black", size = rel(2)),
axis.title.y = element_text(color = "black", size = rel(2)),
strip.text = element_text(face = "bold", size = rel(2)),
strip.background = element_rect(color = "black", fill = "white"),
panel.grid.major.x = element_blank(),
panel.grid.major.y = element_blank(),
panel.grid.minor = element_blank(),
panel.background = element_blank(),
panel.border = element_rect(color = "black", fill = NA),
legend.title = element_blank(),
legend.text = element_text(size = rel(1.3)),
legend.background = element_rect(color = "black", fill = "white"))
# print "lmwl.gmwl"
png("out_sia/iso_lmwl_gmwl_raw_ann_presi_nw_fresh_tst.png", width = 24, height = 20, units = "cm",
res = 100, pointsize = 15)
print(lmwl.gmwl.ann)
dev.off()
######
######
## RAINFALL
# regressions for rain
rn <- subset(sub, sub$type == "rain")
sm.rain <- summary(lm(dD_H ~ d18_16, data = rn))
fg <- subset(sub, sub$type == "fog")
sm.fog <- summary(lm(dD_H ~ d18_16, data = fg))
tf <- subset(sub, sub$type == "tf")
sm.tf <- summary(lm(dD_H ~ d18_16, data = subset(df, df$type == "tf")))
# plotting of annual mean isotope values
lmwl.gmwl.fog <- ggplot(fg, aes(x = d18_16, y = dD_H, color = plot_id_sp1,
shape = type)) +
geom_point(size = 3) +
#geom_abline(intercept = 13.09, slope = 7.38, linetype = 5) + #rain
geom_abline(intercept = 14.54, slope = 7.56, linetype = 5) + #fog
#geom_abline(intercept = 13.52, slope = 7.45, linetype = 5) + #tf
geom_abline(intercept = 10, slope = 8, color = "#636363") +
#annotate("text", label = ( expression(delta*D == 7.41 delta^{18}*O + 13.44), R = 0.95, x = -7.5, y = 32) +
xlim(-10.585, 5.49) +
ylim(-77.468, 41.615) +
xlab( expression(delta^{18}*O ~ "\u2030")) +
ylab( expression(delta*D ~ "\u2030")) +
scale_shape_manual(values = 17) +
scale_color_manual(values = col.id, limits = leg, name = "Plot ID SP1",
labels = c("Fer0", "Fpd0", "Fpo0", "Foc0", "Foc6", "Flm1",
"Nkw1", "Hom4", "Sav5")) + #, "Mnp1", "Mnp2")) +
theme(
axis.text.x = element_text(color = "black", size = rel(2)),
axis.text.y = element_text(color = "black", size = rel(2)),
axis.title.x = element_text(color = "black", size = rel(2)),
axis.title.y = element_text(color = "black", size = rel(2)),
strip.text = element_text(face = "bold", size = rel(2)),
strip.background = element_rect(color = "black", fill = "white"),
panel.grid.major.x = element_blank(),
panel.grid.major.y = element_blank(),
panel.grid.minor = element_blank(),
panel.background = element_blank(),
panel.border = element_rect(color = "black", fill = NA),
legend.title = element_blank(),
legend.text = element_text(size = rel(1.3)),
legend.background = element_rect(color = "black", fill = "white"))
# print "lmwl.gmwl"
png("out_sia/iso_lmwl_gmwl_fog_fresh.png", width = 22.4, height = 20.2, units = "cm",
res = 100, pointsize = 17)
print(lmwl.gmwl.fog)
dev.off()
######
######