SSfpl | R Documentation |
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.
SSfpl(input, A, B, xmid, scal)
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 |
B |
a numeric parameter representing the horizontal asymptote on
the right side (very large values of |
xmid |
a numeric parameter representing the |
scal |
a numeric scale parameter on the |
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
.
José Pinheiro and Douglas Bates
nls
, selfStart
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)
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