SSfpl {stats} R Documentation

## Self-Starting nls Four-Parameter Logistic Model

### Description

This selfStart model evaluates the four-parameter logistic function and its gradient. It has an initial attribute computing initial estimates of the parameters A, B, xmid, and scal for a given set of data.

### Usage

SSfpl(input, A, B, xmid, scal)


### Arguments

 input a numeric vector of values at which to evaluate the model. A a numeric parameter representing the horizontal asymptote on the left side (very small values of input). B a numeric parameter representing the horizontal asymptote on the right side (very large values of input). xmid a numeric parameter representing the input value at the inflection point of the curve. The value of SSfpl will be midway between A and B at xmid. scal a numeric scale parameter on the input axis.

### Value

a numeric vector of the same length as input. It is the value of the expression A+(B-A)/(1+exp((xmid-input)/scal)). If all of the arguments A, B, xmid, and scal are names of objects, the gradient matrix with respect to these names is attached as an attribute named gradient.

### Author(s)

nls, selfStart

### Examples

Chick.1 <- ChickWeight[ChickWeight$Chick == 1, ] SSfpl(Chick.1$Time, 13, 368, 14, 6)  # response only
local({
A <- 13; B <- 368; xmid <- 14; scal <- 6
SSfpl(Chick.1\$Time, A, B, xmid, scal) # response _and_ gradient
})
print(getInitial(weight ~ SSfpl(Time, A, B, xmid, scal), data = Chick.1),
digits = 5)
## Initial values are in fact the converged values
fm1 <- nls(weight ~ SSfpl(Time, A, B, xmid, scal), data = Chick.1)
summary(fm1)

## Visualizing the  SSfpl()  parametrization
xx <- seq(-0.5, 5, length.out = 101)
yy <- 1 + 4 / (1 + exp((2-xx))) # == SSfpl(xx, *) :
stopifnot( all.equal(yy, SSfpl(xx, A = 1, B = 5, xmid = 2, scal = 1)) )
require(graphics)
op <- par(mar = c(0, 0, 3.5, 0))
plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,6), xlim = c(-1, 5),
xlab = "", ylab = "", lwd = 2,
main = "Parameters in the SSfpl model")
mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xmid", phi[4] == "scal")))
usr <- par("usr")
arrows(usr[1], 0, usr[2], 0, length = 0.1, angle = 25)
arrows(0, usr[3], 0, usr[4], length = 0.1, angle = 25)
text(usr[2] - 0.2, 0.1, "x", adj = c(1, 0))
text(     -0.1, usr[4], "y", adj = c(1, 1))
abline(h = c(1, 5), lty = 3)
arrows(-0.8, c(2.1, 2.9),
-0.8, c(0,   5  ), length = 0.1, angle = 25)
text  (-0.8, 2.5, quote(phi[1]))
arrows(-0.3, c(1/4, 3/4),
-0.3, c(0,   1  ), length = 0.07, angle = 25)
text  (-0.3, 0.5, quote(phi[2]))
text(2, -.1, quote(phi[3]))
segments(c(2,3,3), c(0,3,4), # SSfpl(x = xmid = 2) = 3
c(2,3,2), c(3,4,3),    lty = 2, lwd = 0.75)
arrows(c(2.3, 2.7), 3,
c(2.0, 3  ), 3, length = 0.08, angle = 25)
text(      2.5,     3, quote(phi[4])); text(3.1, 3.5, "1")
par(op)


[Package stats version 4.4.0 Index]