similar to: Legend in a HeatMap

Hello all, I am using the heatmap.2 function in the gplots package. I want to supress the reordering of the columns of the data matrix i pass to the function. I used the statement, heatmap.2(z,Colv=FALSE,dendrogram="row",col=redgreen(75)) where z, is the matrix of data. The output i want should have the rows reordered along with the dendrogram and the columns should be in the original

Full_Name: Elizabeth Purdom Version: 1.9.1 OS: Windows XP Submission from: (NULL) (171.64.102.199) It would be great if heatmap and/or image had the option of printing a legend bar on it somewhere that would indicate the ranges given by the colors in the heatmap (i.e. a very small image rectangle with the same colors as in the heatmap). Because heatmap is using layout, it seems pretty

Hi, How do I anchor z=0 to the white color in a levelplot so that the color changes from cyan to magenta precisely as z changes from negative to positive? Also is it easy to change color scheme, say to blue/red as it's more dramatic? Is there a better function for showing heatmap with a color bar? Thanks in advance for any help, I've played with image, heatmap and levelplot a little and

Hello! I have data containing a large number of probabilities (about 60) of nonzero coefficients to predict 10 different independent variables (in 10 different BMA models). i've arranged these probabilities in a matrix like so: (IV1) (IV2) (IV3) ... p(b0) p(b0) p(b0) p(b1) p(b1) p(b1) p(b2) p(b2) p(b2) ... where p(b1) for independent variable 1 is p(b1 !=

Hi there, as I'm not sure to understand the coloring levelplot uses, I'm looking for another easy way to create a heatmap like this: library(lattice) mat <- matrix(seq(1,5, length.out = 12), nrow = 3) mat[1,2] <- 3.5 my.at <- seq(0.5,5.5, length.out = 6) my.col.regions <- rainbow(5) graph <- levelplot(t(mat[nrow(mat):1, ] ), at = my.at, col.regions = my.col.regions)

Hi there, I'd like to create a heatmap from my matrix with a) a defined color range (lets say from yellow to red) b) using striking colors above and below a certain threshold (above = "green", below = "blue") Example matrix (there should be a few outliers generated...) + simple levelplot without outliers marked: library(lattice) my.mat <- matrix(rnorm(800), nrow =

Hi all, I just try to get familiar with levelplot() for generating heatmaps. I have x, y, z-data stored in a file: e.g.: "file.csv": 0 0 0.1 0 1 0.5 0 2 0.4 1 0 0.3 1 1 0.4 1 2 0.6 ... I can use scan() for generating the matrix for R: inp <- scan("file.csv", list(0, 0, 0)) How can I feed inp into levelplot()? Thanks a lot for your help Richard -- Richard M?ller . Am

Dear R users, I am trying to print heatmaps in a loop (with a pause). Idea is to visualize changing correlations over time and for testing I wrote this simple (reproducible) code below. My problem is that levelplot() does not produce any output when I run the code (though heatmap does). Ideally I would like to use levelplot() as it produces a neat index on the side indicating the color and the

Hi, I would like to add contour lines to a (trellis/lattice-) levelplot. Sure, there is the "contour=TRUE" argument, but this uses "cuts=..." (which is usually chosen very high for my plots. I guess cuts=99 is the best you can do (?)) for plotting the contour lines. Furthermore, I do not like the numbering of the contour lines this way. Therefore, I tried to add a

Dear all, We used the following function to create a spatial plot of a raster image: filled.contour(xx,yy,zz, color = terrain.colors, nlevels=10, main=naamjaar, plot.axes = { contour(Xcoord/1000,Ycoord/1000,lim.data, nlevels = 4, col=4,drawlabels = T, axes = FALSE, frame.plot = FFALSE, add = TRUE);axis(1); axis(2);

Tried to post this last night, but it doesn't seem to have appeared. Using R 2.0.1 on Windows XP + SP2. I am traveling, away from my usual references. I'm trying to make a 4-dimensional plot: a levelplot with overlaid contours, with different response variables represented by (1) colors on the levelplot and (2) the contour lines. First try was filled.contour + contour but the key

Hello there, I am creating a series of images using levelplot but I also want to overlay a contour for a particular value as reference. Here is the levelplot command for the image: print(levelplot(d~x+y,data=t,cuts=20,scales=list(draw=F),xlab=NULL,ylab= NULL,col.regions=heat.colors(100)[100:1]),split=c(1,1,1,1),more=T) and then to add the contour plot (I only want a contour at level 5):

Hi everybody, I want to add a single contourline to a levelplot. While everything works fine if the value at which the line should be drawn is positive, there is an error if the value is negative: library(lattice) my.panel <- function(..., at, contour=FALSE, labels=NULL) { panel.levelplot(..., at=at, contour=contour, labels=labels) panel.contourplot(..., contour=TRUE,

Hi, I'm trying to create a "heatmap" that is just a line segment. That is, a graphic that shows an interval and how a dependent variable varies along that interval, with the value of the dependent variable shown by color rather than on a y-axis. The image() function produces something close to what I'm envisioning, but rather than plotting color on a 2-D grid, I need a

Hello, Myself Rugma Gopakumar.I would like to know how to add a legend to a heatmap.. Regards, Rugma Gopakumar. [[alternative HTML version deleted]]

Hello, I want to add a single contour line to a levelplot but can't figure out how to do it 'on-the-fly'. When I include the last line in the code below, I get the following error: Error in NextMethod("[") : Argument "subscripts" is missing, with no default Any tips on how to fix this are greatly appreciated! Ian Jonsen

Dear R users, I have a question regarding how to make row labels readable in a heat map. I have successfully made a heat map using function "heatmap.2" in the package "gplots". However, as there are many rows in the heat map, I have difficulties labeling them (heatmap.2 provides a parameter "labRow" to label the row names, but as I have too many rows, I can not make

Hi all, I encountered a difference between versions 1.6.1 and 1.7.0 when using levelplot with an option 'at'. Here are the specs of the two platforms used: > R.version _ platform sparc-sun-solaris2.8 arch sparc os solaris2.8 system sparc, solaris2.8 status major 1 minor 6.1 year 2002 month 11 day 01 language R > R.version _ platform

Hello, I have encountered some unexpected behaviour with levelplot that may simply be a misunderstanding on my part. If I create a levelplot from a matrix with named columns, some "padding" space appears at the top and bottom of the heatmap. Here is an example, and I've used panel.fill to make the space I'm speaking of evident (in green).

Hello, I'm trying to learn how to use lattice and levelplot in particular. There are three elements of customizing the plots I'm stuck with: a) Is there a way to put borders around each "cell" within a level-plot. I'm trying to do something like the colsep/rowsep/sepcolor/sepwidth parameters of heatmap.2 in gplots b) Can I alter the line-width of dendrogram added