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Copy pathFigure_9d_mehg_time_con.R
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Figure_9d_mehg_time_con.R
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setwd("C:/Users/gi/Desktop/ULTIME_hgII___/In1")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
str(mehgT$Oxic1)
oxic_conc1<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc1_pM<-rowMeans(oxic_conc1)/200.59*1000
suboxic_conc1<-data.frame(mehgT$Suboxic1)
suboxic_conc1_pM<-rowMeans(suboxic_conc1)/200.59*1000
anoxic_conc1<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc1_pM<-rowMeans(anoxic_conc1)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIe/In1b")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc1b<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc1b_pM<-rowMeans(oxic_conc1b)/200.59*1000
suboxic_conc1b<-data.frame(mehgT$Suboxic1)
suboxic_conc1b_pM<-rowMeans(suboxic_conc1b)/200.59*1000
anoxic_conc1b<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc1b_pM<-rowMeans(anoxic_conc1b)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIe/In2b")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc2b<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc2b_pM<-rowMeans(oxic_conc2b)/200.59*1000
suboxic_conc2b<-data.frame(mehgT$Suboxic1)
suboxic_conc2b_pM<-rowMeans(suboxic_conc2b)/200.59*1000
anoxic_conc2b<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc2b_pM<-rowMeans(anoxic_conc2b)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIIe/In1c")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc1c<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc1c_pM<-rowMeans(oxic_conc1c)/200.59*1000
suboxic_conc1c<-data.frame(mehgT$Suboxic1)
suboxic_conc1c_pM<-rowMeans(suboxic_conc1c)/200.59*1000
anoxic_conc1c<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc1c_pM<-rowMeans(anoxic_conc1c)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIIe/In2c")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc2c<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc2c_pM<-rowMeans(oxic_conc2c)/200.59*1000
suboxic_conc2c<-data.frame(mehgT$Suboxic1)
suboxic_conc2c_pM<-rowMeans(suboxic_conc2c)/200.59*1000
anoxic_conc2c<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc2c_pM<-rowMeans(anoxic_conc2c)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIIe/In3c")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc3c<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc3c_pM<-rowMeans(oxic_conc3c)/200.59*1000
suboxic_conc3c<-data.frame(mehgT$Suboxic1)
suboxic_conc3c_pM<-rowMeans(suboxic_conc3c)/200.59*1000
anoxic_conc3c<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc3c_pM<-rowMeans(anoxic_conc3c)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/IIe_IIIe_IVe/IIIe/In4c")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_conc4c<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_conc4c_pM<-rowMeans(oxic_conc4c)/200.59*1000
suboxic_conc4c<-data.frame(mehgT$Suboxic1)
suboxic_conc4c_pM<-rowMeans(suboxic_conc4c)/200.59*1000
anoxic_conc4c<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_conc4c_pM<-rowMeans(anoxic_conc4c)/200.59*1000
setwd("C:/Users/gi/Desktop/ULTIME_hgII___/Centrale_NOme")
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concb<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concb_pM<-rowMeans(oxic_concb)/200.59*1000
suboxic_concb<-data.frame(mehgT$Suboxic1)
suboxic_concb_pM<-rowMeans(suboxic_concb)/200.59*1000
anoxic_concb<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concb_pM<-rowMeans(anoxic_concb)/200.59*1000
setwd('C:/Users/gi/Desktop/nuoveMEt3/Fosfati/F6')#Fminmin
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concf6<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concf6_pM<-rowMeans(oxic_concf6)/200.59*1000
suboxic_concf6<-data.frame(mehgT$Suboxic1)
suboxic_concf6_pM<-rowMeans(suboxic_concf6)/200.59*1000
anoxic_concf6<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concf6_pM<-rowMeans(anoxic_concf6)/200.59*1000
setwd('C:/Users/gi/Desktop/nuoveMEt3/Fosfati/F2')#Fminmin
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concf2<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concf2_pM<-rowMeans(oxic_concf2)/200.59*1000
suboxic_concf2<-data.frame(mehgT$Suboxic1)
suboxic_concf2_pM<-rowMeans(suboxic_concf2)/200.59*1000
anoxic_concf2<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concf2_pM<-rowMeans(anoxic_concf2)/200.59*1000
setwd('C:/Users/gi/Desktop/nuoveMEt3/add_sim1')#Fminmin
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concn1<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concn1_pM<-rowMeans(oxic_concn1)/200.59*1000
suboxic_concn1<-data.frame(mehgT$Suboxic1)
suboxic_concn1_pM<-rowMeans(suboxic_concn1)/200.59*1000
anoxic_concn1<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concn1_pM<-rowMeans(anoxic_concn1)/200.59*1000
setwd('C:/Users/gi/Desktop/nuoveMEt3/add_sim2')#Fminmin
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concn2<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concn2_pM<-rowMeans(oxic_concn2)/200.59*1000
suboxic_concn2<-data.frame(mehgT$Suboxic1)
suboxic_concn2_pM<-rowMeans(suboxic_concn2)/200.59*1000
anoxic_concn2<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concn2_pM<-rowMeans(anoxic_concn2)/200.59*1000
setwd('C:/Users/gi/Desktop/nuoveMEt3/add_sim3')#Fminmin
mehgT<-read.csv('Methyl_Hg.csv', header=FALSE, skip = 1,sep = ",", dec=".")
names(mehgT)<-c("Time", "Oxic1","Oxic2", "CIL", "Oxycline","Suboxic1","Suboxic2", "Anoxic","Anoxic2","Anoxic3","Sed1","Sed2")
mehgT<-mehgT [2:2413,]
oxic_concn3<-data.frame(mehgT$Oxic1,mehgT$Oxic2,mehgT$CIL,mehgT$Oxycline)
oxic_concn3_pM<-rowMeans(oxic_concn3)/200.59*1000
suboxic_concn3<-data.frame(mehgT$Suboxic1)
suboxic_concn3_pM<-rowMeans(suboxic_concn3)/200.59*1000
anoxic_concn3<-data.frame(mehgT$Suboxic2,mehgT$Anoxic,mehgT$Anoxic2,mehgT$Anoxic3)
anoxic_concn3_pM<-rowMeans(anoxic_concn3)/200.59*1000
oxic_pool<-data.frame(oxic_concn3_pM,
oxic_concf2_pM,oxic_concn1_pM,
oxic_concn2_pM,oxic_concf6_pM)
subox_pool<-data.frame(suboxic_concn3_pM,
suboxic_concf2_pM,suboxic_concn1_pM,
suboxic_concn2_pM,suboxic_concf6_pM)
anox_pool<-data.frame(anoxic_concn3_pM,
anoxic_concf2_pM,anoxic_concn1_pM,anoxic_concn2_pM,
anoxic_concf6_pM)
anox_pool
sd1<-apply(oxic_pool, 1, FUN=sd)
sd2<-apply(subox_pool, 1, FUN=sd)
sd3<-apply(anox_pool, 1, FUN=sd)
SE_hg_ol<-sd1/sqrt(5)
o1<- rowMeans(oxic_pool)-SE_hg_ol
o2<- rowMeans(oxic_pool)+SE_hg_ol
SE_hg_sol<-sd2/sqrt(5)
s1<- rowMeans(subox_pool)-SE_hg_sol
s2<- rowMeans(subox_pool)+SE_hg_sol
SE_hg_aol<-sd3/sqrt(5)
a1<- rowMeans(anox_pool)-SE_hg_aol
a2<- rowMeans(anox_pool)+SE_hg_aol
p1<-as.numeric(c(o1[36:2412],rev(o2[36:2412])))
p2<-c(s1[36:2412],rev(s2[36:2412]))
p3<-c(a1[36:2412],rev(a2[36:2412]))
ax2<-seq(36:2412)
yy<-c(ax2,rev(ax2))
str(oxic_pool)
setwd('C:/Users/gi/Desktop/nuoveMEt3/')
tiff('Fig.9d_MeHgConc.tiff', height=14.5, width=23, units='cm',
compression="lzw", res=300)
par(mfrow=c(1,1), mar=c(4.5,5,4,1),mgp=c(3,2,0), bty='n')
plot(rowMeans(oxic_pool[36:2412,]), col="#0098cc", type="l", ylim=c(0,1.0),
main=expression(paste('MeHg'[T]*' water concentrations')),
ylab= " ", xaxt='n',
xlab= " ", lwd=1, cex.axis=2, cex.lab=2,cex.main=2.3)
polygon(yy,p1,col='#0098cc44',border = '#0098cc44')
par(new=T)
plot(rowMeans(subox_pool[36:2412,]), col="#65cc00", type="l", ylim=c(0,1.0),
main='',
ylab= " ", xaxt='n',
xlab= " ", lwd=1, cex.axis=2, cex.lab=2,cex.main=2.3)
polygon(yy,p2,col='#65cc0044',border = '#65cc0044')
par(new=T)
plot(rowMeans(anox_pool[36:2412,]), col="#800026", type="l", ylim=c(0,1.0),
main='',
ylab= " ", xaxt='n',
xlab= " ", lwd=1, cex.axis=2, cex.lab=2,cex.main=2.3)
polygon(yy,p3,col='#80002644',border = '#80002644')
abline(v=1956, lwd=2.5, col='grey30',lty=3)
text(960,.65,'AOL',col='#800026', cex=2)
text(1500,0.28,'SOL',col='#65cc00', cex=2)
text(1500,.011,'OL',col='#0098cc', cex=2)
ax<-seq(from=36,to=2414, by=220)
ll<-seq(1850,2050, by=20)
str(ax)
axis(1,at=ax,labels=ll, cex.axis=2)
mtext(expression(paste('pM')), 2, at= 2, line=2.6, cex=2)
dev.off()