Nothing
library(fitdistrplus)
nbboot <- 201
nbboot <- 10
# (1) Fit of a gamma distribution
#
set.seed(123)
s1 <- rgamma(20, 3, 2)
f1 <- fitdist(s1, "gamma")
b1 <- bootdist(f1, niter=nbboot, silent=TRUE)
plot(b1)
quantile(b1)
par(mfrow=c(1,2))
CIcdfplot(b1, CI.level=95/100, CI.output = "probability", CI.fill="grey80", CI.col="black")
CIcdfplot(b1, CI.level=95/100, CI.output = "quantile", datacol="blue")
par(mfrow=c(1,2))
CIcdfplot(b1, CI.level=90/100, CI.output = "probability")
CIcdfplot(b1, CI.level=90/100, CI.output = "quantile", CI.col="black", CI.type = "less",
CI.fill="grey85", verticals=TRUE, datacol="blue", do.points=FALSE)
par(mfrow=c(1,2))
CIcdfplot(b1, CI.level=90/100, CI.output = "probability", CI.type = "greater")
CIcdfplot(b1, CI.level=90/100, CI.output = "quantile", CI.col="black", CI.type = "greater",
CI.fill="grey90", datacol="blue", datapch=21)
par(mfrow=c(1,1))
CIcdfplot(b1, CI.level=90/100, CI.output = "probability", CI.col="black", CI.type = "less", CI.fill="grey90")
CIcdfplot(b1, CI.level=90/100, CI.output = "quantile", CI.col="black", CI.type = "less", CI.fill="grey90",
verticals=TRUE, datacol="blue", do.points=FALSE)
CIcdfplot(b1, CI.level=90/100, CI.output = "quantile", CI.col="grey90", CI.type = "less", CI.fill="grey90",
verticals=TRUE, datacol="blue", do.points=FALSE, CI.only=TRUE)
CIcdfplot(b1, CI.level=90/100, CI.output = "probability", CI.col="grey85", CI.type = "less", CI.fill="grey90",
CI.only = TRUE)
# (2) an example from ecotoxicology
# with censored data
#
data(salinity)
log10LC50 <-log10(salinity)
fln <- fitdistcens(log10LC50,"norm")
bln <- bootdistcens(fln, niter=nbboot)
(HC5ln <- quantile(bln,probs = 0.05))
CIcdfplot(bln, CI.output = "quantile", CI.fill = "lightblue", CI.col = "blue",
xlab = "log10(LC50)",xlim=c(0.5,2),lines01 = TRUE)
# zoom around the HC5 with CI on quantiles
CIcdfplot(bln, CI.output = "quantile", CI.fill = "lightblue", CI.col = "blue",
xlab = "log10(LC50)", lines01 = TRUE, xlim = c(0.8, 1.5), ylim = c(0, 0.1))
abline(h = 0.05, lty = 1)
# zoom around the HC5 with CI on probabilities
CIcdfplot(bln, CI.output = "probability", CI.fill = "lightblue", CI.col = "blue",
xlab = "log10(LC50)", lines01 = TRUE, xlim = c(0.8, 1.5), ylim = c(0, 0.1))
abline(h = 0.05, lty = 1)
#some ideas from http://edild.github.io/ssd/
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