Re: [R] R for-loop to add layer to lattice plot
Awesome, thanks!
On Wed, Oct 28, 2020 at 7:00 AM Deepayan Sarkar
wrote:
>
> On Tue, Oct 27, 2020 at 6:04 PM Luigi Marongiu
> wrote:
> >
> > Hello,
> > I am using e1071 to run support vector machine. I would like to plot
> > the data with lattice and specifically show the hyperplanes created by
> > the system.
> > I can store the hyperplane as a contour in an object, and I can plot
> > one object at a time. Since there will be thousands of elements to
> > plot, I can't manually add them one by one to the plot, so I tried to
> > loop into them, but only the last is added.
> > Here it the working example for more clarity:
> >
> > ```
> > library(e1071)
> > library(lattice)
> > library(latticeExtra)
> >
> > make.grid <- function(x, n = 1000) {
> > grange = apply(x, 2, range)
> > x1 = seq(from = grange[1,1], to = grange[2,1], length = n)
> > x2 = seq(from = grange[1,2], to = grange[2,2], length = n)
> > expand.grid(X1 = x1, X2 = x2)
> > }
> >
> > plot_list <- list()
> > for (i in 1:10) {
> > x1 = rnorm(100, mean = 0.2, sd = 0.15)
> > y1 = rnorm(100, mean = 0.7, sd = 0.15)
> > y2 = rnorm(100, mean = 0.2, sd = 0.15)
> > x2 = rnorm(100, mean = 0.75, sd = 0.15)
> > df = data.frame(x = c(x1,x2), y=c(y1,y2),
> > z=c(rep(0, length(x1)), rep(1, length(x2
> > df$z = factor(c(rep(0, length(x1)), rep(1, length(x2
> > df[, "train"] <- ifelse(runif(nrow(df)) < 0.8, 1, 0)
> > trainset <- df[df$train == 1, ]
> > testset <- df[df$train == 0, ]
> > trainColNum <- grep("train", names(df))
> > trainset <- trainset[, -trainColNum]
> > testset <- testset[, -trainColNum]
> > svm_model <- svm(z ~ .,
> > data = trainset,
> > type = "C-classification",
> > kernel = "linear",
> > scale = FALSE)
> > # generate contour
> > xmat = make.grid(matrix(c(testset$x, testset$y),
> > ncol = 2, byrow=FALSE))
> > xgrid = as.data.frame(xmat)
> > names(xgrid) = c("x", "y")
> > z = predict(svm_model, xgrid)
> > xyz_dat = as.data.frame(cbind(xgrid, z))
> > plot_list[[i]] = contourplot(z ~ y+x, data=xyz_dat, pretty = TRUE,
> >xlim=c(-1,50), ylim=c(-0.001, 0.05),
> >labels = FALSE, col = "blue", lwd = 0.5)
> >
> > }
> > # the contour is stored in the object plot_list
> > str(plot_list) # confirm that there is data here
> >
> > # I can add one element at the time to lattice's xyplot and store it
> > in an object P
> > P = xyplot(y ~ x, group = z, data = df,
> >pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[1]]) +
> > as.layer(plot_list[[2]])
> > plot(P) # this demonstrates that the lines are not the same
> >
> > # but if I add the elements via loop, it does not work
> > for (i in 1:length(plot_list)) {
> > print(i)
> > P = xyplot(y ~ x, group = z, data = df,
> > pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[i]])
> > }
> > plot(P)
> > ```
> >
> > Am I missing something?
>
> Yes, as Mark says, you need to change the last part to something like
>
> P = xyplot(y ~ x, group = z, data = df, pch = 16, cex = 1.5, alpha = 0.25)
> for (i in 1:length(plot_list)) {
> print(i)
> P = P + as.layer(plot_list[[i]])
> }
> plot(P)
>
> -Deepayan
>
> > Thank you
> >
> > __
> > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
--
Best regards,
Luigi
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] R for-loop to add layer to lattice plot
On Tue, Oct 27, 2020 at 6:04 PM Luigi Marongiu wrote:
>
> Hello,
> I am using e1071 to run support vector machine. I would like to plot
> the data with lattice and specifically show the hyperplanes created by
> the system.
> I can store the hyperplane as a contour in an object, and I can plot
> one object at a time. Since there will be thousands of elements to
> plot, I can't manually add them one by one to the plot, so I tried to
> loop into them, but only the last is added.
> Here it the working example for more clarity:
>
> ```
> library(e1071)
> library(lattice)
> library(latticeExtra)
>
> make.grid <- function(x, n = 1000) {
> grange = apply(x, 2, range)
> x1 = seq(from = grange[1,1], to = grange[2,1], length = n)
> x2 = seq(from = grange[1,2], to = grange[2,2], length = n)
> expand.grid(X1 = x1, X2 = x2)
> }
>
> plot_list <- list()
> for (i in 1:10) {
> x1 = rnorm(100, mean = 0.2, sd = 0.15)
> y1 = rnorm(100, mean = 0.7, sd = 0.15)
> y2 = rnorm(100, mean = 0.2, sd = 0.15)
> x2 = rnorm(100, mean = 0.75, sd = 0.15)
> df = data.frame(x = c(x1,x2), y=c(y1,y2),
> z=c(rep(0, length(x1)), rep(1, length(x2
> df$z = factor(c(rep(0, length(x1)), rep(1, length(x2
> df[, "train"] <- ifelse(runif(nrow(df)) < 0.8, 1, 0)
> trainset <- df[df$train == 1, ]
> testset <- df[df$train == 0, ]
> trainColNum <- grep("train", names(df))
> trainset <- trainset[, -trainColNum]
> testset <- testset[, -trainColNum]
> svm_model <- svm(z ~ .,
> data = trainset,
> type = "C-classification",
> kernel = "linear",
> scale = FALSE)
> # generate contour
> xmat = make.grid(matrix(c(testset$x, testset$y),
> ncol = 2, byrow=FALSE))
> xgrid = as.data.frame(xmat)
> names(xgrid) = c("x", "y")
> z = predict(svm_model, xgrid)
> xyz_dat = as.data.frame(cbind(xgrid, z))
> plot_list[[i]] = contourplot(z ~ y+x, data=xyz_dat, pretty = TRUE,
>xlim=c(-1,50), ylim=c(-0.001, 0.05),
>labels = FALSE, col = "blue", lwd = 0.5)
>
> }
> # the contour is stored in the object plot_list
> str(plot_list) # confirm that there is data here
>
> # I can add one element at the time to lattice's xyplot and store it
> in an object P
> P = xyplot(y ~ x, group = z, data = df,
>pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[1]]) +
> as.layer(plot_list[[2]])
> plot(P) # this demonstrates that the lines are not the same
>
> # but if I add the elements via loop, it does not work
> for (i in 1:length(plot_list)) {
> print(i)
> P = xyplot(y ~ x, group = z, data = df,
> pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[i]])
> }
> plot(P)
> ```
>
> Am I missing something?
Yes, as Mark says, you need to change the last part to something like
P = xyplot(y ~ x, group = z, data = df, pch = 16, cex = 1.5, alpha = 0.25)
for (i in 1:length(plot_list)) {
print(i)
P = P + as.layer(plot_list[[i]])
}
plot(P)
-Deepayan
> Thank you
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Re: [R] R for-loop to add layer to lattice plot
Hi: I think you're writing over the plots so only the last one exists.
Maybe try P = P + whatever but
I'm not sure if that's allowed with plots.
On Tue, Oct 27, 2020 at 8:34 AM Luigi Marongiu
wrote:
> Hello,
> I am using e1071 to run support vector machine. I would like to plot
> the data with lattice and specifically show the hyperplanes created by
> the system.
> I can store the hyperplane as a contour in an object, and I can plot
> one object at a time. Since there will be thousands of elements to
> plot, I can't manually add them one by one to the plot, so I tried to
> loop into them, but only the last is added.
> Here it the working example for more clarity:
>
> ```
> library(e1071)
> library(lattice)
> library(latticeExtra)
>
> make.grid <- function(x, n = 1000) {
> grange = apply(x, 2, range)
> x1 = seq(from = grange[1,1], to = grange[2,1], length = n)
> x2 = seq(from = grange[1,2], to = grange[2,2], length = n)
> expand.grid(X1 = x1, X2 = x2)
> }
>
> plot_list <- list()
> for (i in 1:10) {
> x1 = rnorm(100, mean = 0.2, sd = 0.15)
> y1 = rnorm(100, mean = 0.7, sd = 0.15)
> y2 = rnorm(100, mean = 0.2, sd = 0.15)
> x2 = rnorm(100, mean = 0.75, sd = 0.15)
> df = data.frame(x = c(x1,x2), y=c(y1,y2),
> z=c(rep(0, length(x1)), rep(1, length(x2
> df$z = factor(c(rep(0, length(x1)), rep(1, length(x2
> df[, "train"] <- ifelse(runif(nrow(df)) < 0.8, 1, 0)
> trainset <- df[df$train == 1, ]
> testset <- df[df$train == 0, ]
> trainColNum <- grep("train", names(df))
> trainset <- trainset[, -trainColNum]
> testset <- testset[, -trainColNum]
> svm_model <- svm(z ~ .,
> data = trainset,
> type = "C-classification",
> kernel = "linear",
> scale = FALSE)
> # generate contour
> xmat = make.grid(matrix(c(testset$x, testset$y),
> ncol = 2, byrow=FALSE))
> xgrid = as.data.frame(xmat)
> names(xgrid) = c("x", "y")
> z = predict(svm_model, xgrid)
> xyz_dat = as.data.frame(cbind(xgrid, z))
> plot_list[[i]] = contourplot(z ~ y+x, data=xyz_dat, pretty = TRUE,
>xlim=c(-1,50), ylim=c(-0.001, 0.05),
>labels = FALSE, col = "blue", lwd = 0.5)
>
> }
> # the contour is stored in the object plot_list
> str(plot_list) # confirm that there is data here
>
> # I can add one element at the time to lattice's xyplot and store it
> in an object P
> P = xyplot(y ~ x, group = z, data = df,
>pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[1]]) +
> as.layer(plot_list[[2]])
> plot(P) # this demonstrates that the lines are not the same
>
> # but if I add the elements via loop, it does not work
> for (i in 1:length(plot_list)) {
> print(i)
> P = xyplot(y ~ x, group = z, data = df,
> pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[i]])
> }
> plot(P)
> ```
>
> Am I missing something?
> Thank you
>
> __
> R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
[R] R for-loop to add layer to lattice plot
Hello,
I am using e1071 to run support vector machine. I would like to plot
the data with lattice and specifically show the hyperplanes created by
the system.
I can store the hyperplane as a contour in an object, and I can plot
one object at a time. Since there will be thousands of elements to
plot, I can't manually add them one by one to the plot, so I tried to
loop into them, but only the last is added.
Here it the working example for more clarity:
```
library(e1071)
library(lattice)
library(latticeExtra)
make.grid <- function(x, n = 1000) {
grange = apply(x, 2, range)
x1 = seq(from = grange[1,1], to = grange[2,1], length = n)
x2 = seq(from = grange[1,2], to = grange[2,2], length = n)
expand.grid(X1 = x1, X2 = x2)
}
plot_list <- list()
for (i in 1:10) {
x1 = rnorm(100, mean = 0.2, sd = 0.15)
y1 = rnorm(100, mean = 0.7, sd = 0.15)
y2 = rnorm(100, mean = 0.2, sd = 0.15)
x2 = rnorm(100, mean = 0.75, sd = 0.15)
df = data.frame(x = c(x1,x2), y=c(y1,y2),
z=c(rep(0, length(x1)), rep(1, length(x2
df$z = factor(c(rep(0, length(x1)), rep(1, length(x2
df[, "train"] <- ifelse(runif(nrow(df)) < 0.8, 1, 0)
trainset <- df[df$train == 1, ]
testset <- df[df$train == 0, ]
trainColNum <- grep("train", names(df))
trainset <- trainset[, -trainColNum]
testset <- testset[, -trainColNum]
svm_model <- svm(z ~ .,
data = trainset,
type = "C-classification",
kernel = "linear",
scale = FALSE)
# generate contour
xmat = make.grid(matrix(c(testset$x, testset$y),
ncol = 2, byrow=FALSE))
xgrid = as.data.frame(xmat)
names(xgrid) = c("x", "y")
z = predict(svm_model, xgrid)
xyz_dat = as.data.frame(cbind(xgrid, z))
plot_list[[i]] = contourplot(z ~ y+x, data=xyz_dat, pretty = TRUE,
xlim=c(-1,50), ylim=c(-0.001, 0.05),
labels = FALSE, col = "blue", lwd = 0.5)
}
# the contour is stored in the object plot_list
str(plot_list) # confirm that there is data here
# I can add one element at the time to lattice's xyplot and store it
in an object P
P = xyplot(y ~ x, group = z, data = df,
pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[1]]) +
as.layer(plot_list[[2]])
plot(P) # this demonstrates that the lines are not the same
# but if I add the elements via loop, it does not work
for (i in 1:length(plot_list)) {
print(i)
P = xyplot(y ~ x, group = z, data = df,
pch = 16, cex = 1.5, alpha = 0.25) + as.layer(plot_list[[i]])
}
plot(P)
```
Am I missing something?
Thank you
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
