#Hydrotime models ######################################
HTG.fun <- function(time, Psi, ThetaH, mu, sigma){
exp(-exp(- (Psi - (ThetaH/time) - mu)/sigma) ) }
"HTG" <- function(){
fct <- function(x, parm){
HTG.fun(x[,1], x[,2], parm[,1], parm[,2], parm[,3]) }
name <- "HTG"
names <- c("ThetaH", "mu", "sigma")
text <- "Hydrotime model with Gumbel distribution of Psib (Mesgaran et al., 2013)"
ss <- function(data){
x1 <- data[, 1]
x2 <- data[, 2]
y <- data[, 3]
pseudoY <- qnorm((y+10e-6)*0.99)
mod <- lm(pseudoY ~ I(1/x1) + x2)
sigmaPsib <- 1/coef(mod)[3]
Psib50 <- -coef(mod)[1]*sigmaPsib
ThetaH <- -coef(mod)[2]*sigmaPsib
return(c(ThetaH, Psib50, sigmaPsib))
}
GR <- function(parms, respl, reference="control", type="relative", Psi){
HTG.gra <- function(thetaH, mu, sigma, Psi, g) {
.rquant <- -log(-log(g))
GR <- - (sigma * .rquant - Psi + mu )/ thetaH
GR <- ifelse(GR > 0, GR, 0) }
thetaH <- as.numeric(parms[1])
mu <- as.numeric(parms[2])
sigma <- as.numeric(parms[3])
g <- respl/100
if(type=="absolute"){
EDp <- HTG.gra(thetaH, mu, sigma, Psi, g)
#Approximation of derivatives(finite differences)
d1.1 <- HTG.gra(thetaH, mu, sigma, Psi, g)
d1.2 <- HTG.gra(thetaH + 10e-6, mu, sigma, Psi, g)
d1 <- (d1.2 - d1.1)/10e-6
d2.1 <- HTG.gra(thetaH, mu, sigma, Psi, g)
d2.2 <- HTG.gra(thetaH, mu + 10e-6, sigma, Psi, g)
d2 <- (d2.2 - d2.1)/10e-6
d3.1 <- HTG.gra(thetaH, mu, sigma, Psi, g)
d3.2 <- HTG.gra(thetaH, mu, sigma + 10e-6, Psi, g)
d3 <- (d3.2 - d3.1)/10e-6
EDder <- c(d1, d2, d3)
} else{ if(type=="relative") {
.Pmax <- exp(-exp(- (Psi - mu)/sigma) )
grel <- .Pmax*g
EDp <- HTG.gra(thetaH, mu, sigma, Psi, grel)
#Approximation of derivatives(finite differences)
d1.1 <- HTG.gra(thetaH, mu, sigma, Psi, grel)
d1.2 <- HTG.gra(thetaH + 10e-6, mu, sigma, Psi, grel)
d1 <- (d1.2 - d1.1)/10e-6
d2.1 <- HTG.gra(thetaH, mu, sigma, Psi, grel)
d2.2 <- HTG.gra(thetaH, mu + 10e-6, sigma, Psi, grel)
d2 <- (d2.2 - d2.1)/10e-6
d3.1 <- HTG.gra(thetaH, mu, sigma, Psi, grel)
d3.2 <- HTG.gra(thetaH, mu, sigma + 10e-6, Psi, grel)
d3 <- (d3.2 - d3.1)/10e-6
EDder <- c(d1, d2, d3)
} }
return(list(EDp, EDder))
}
deriv1 <- function(x, parm){
#Approximation by using finite differences
d1.1 <- HTG.fun(x[,1], x[,2], parm[,1], parm[,2], parm[,3])
d1.2 <- HTG.fun(x[,1], x[,2], (parm[,1] + 10e-6), parm[,2], parm[,3])
d1 <- (d1.2 - d1.1)/10e-6
d2.1 <- HTG.fun(x[,1], x[,2], parm[,1], parm[,2], parm[,3])
d2.2 <- HTG.fun(x[,1], x[,2], parm[,1], (parm[,2] + 10e-6), parm[,3])
d2 <- (d2.2 - d2.1)/10e-6
d3.1 <- HTG.fun(x[,1], x[,2], parm[,1], parm[,2], parm[,3])
d3.2 <- HTG.fun(x[,1], x[,2], parm[,1], parm[,2], (parm[,3] + 10e-6))
d3 <- (d3.2 - d3.1)/10e-6
cbind(d1, d2, d3)
}
returnList <- list(fct=fct, ssfct=ss, name = name, names=names, text=text, edfct=GR, deriv1=deriv1)
class(returnList) <- "drcMean"
invisible(returnList)
}
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.