similar to: smoothScatter function question and adding a legend

Hi, I have been trying to plot density plots using the example on: http://addictedtor.free.fr/graphiques/graphcode.php?graph=139 I used to use this function, but I cannot get any old code or even the example to work. library("geneplotter") require("RColorBrewer") x1 <- matrix(rnorm(1e4), ncol=2) x2 <- matrix(rnorm(1e4, mean=3, sd=1.5), ncol=2) x <-

Hello, I am attempting to use smoothScatter to plot a heatmap of locations of events in an x-y axis. When I plot the heatmap without passing xlim and ylim parameters, it fills the plot area but the perspective is a bit skewed. I would like to standardize these plots to a uniform window size that does not depend on the range of values in the dataframe. However, when I resize the plot using xlim or

Dear all, I am using the smoothScatter function in base R for a plot - Lab.palette.both <- colorRampPalette(c("darkblue","lightblue","red","yellow"), space = "Lab") smoothScatter(X24fresh.sorted[,c(13,10)], colramp = Lab.palette.both) I understand that my yellow colored points represent highest density, red lower, lightblue even lower etc.

Hi: Is there a way to get smoothScatter to not clip when I increase the xlim and ylim parameters? Consider the following example: set.seed(17) x1<-rnorm(100) x2<-rnorm(100) smoothScatter(x1,x2) #Now if I increase xlim and ylim notice that the plot seems to be clipped at the former xlim, and ylim boundaries: smoothScatter(x1,x2, xlim=c(-5,5), ylim=c(-5,5)) Thanks. Jen sessionInfo() R

Hello, I have found that in smoothScatter it is not possible to reverse the axes plotted (R version 2.9.0) .   It appears that this arises from the hard coding of xlim and ylim in smoothscatter.R in the lines : x <- x[ xlim[1] <= x[,1] & x[,1] <=xlim[2], ]   (line  number 25) and x <- x[ ylim[1] <= x[,2] & x[,2] <= ylim[2], ]  (line number 31) This results in a x

Hello, I'm having some trouble getting a good result for a smoothScatter plot. I have some data that I want to log-plot, but when I use smoothScatter the result is not correct. The problem seems to be that with the log="x" argument smoothScatter calculates the bins linearly, so the plot will be skewed towards the right. See for example:

Hi, I want to make a plot similar to sm1 (attached). The code I tried is: dcols <- densCols(x,y) smoothScatter(x,y, col = dcols, pch=20,xlab="A",ylab="B") abline(h=0, col="red") But it turned out to be s1 (attached) with big dots. I was wondering if anything wrong with my code. Thanks,Zhengyu -------------- next part -------------- A non-text

I'm working with a large dataset - large enough that when I do a scatter plot the points all blur together, so I want to plot their density by color - a heat map or something like that. I've used smoothScatter for tasks like this, but the problem is that my current dataset really only looks good on a log-log scale. When I do the following command smoothScatter( data,

Dear R-devel, my Bioconductor EDASeq package has a function MDPlot that uses the smoothScatter() function from the graphics package. When I test this package on travis-ci.org (R CMD check) I get the following error (which I don't get on my machine nor on the Bioconductor build system). * checking examples ... ERROR Running examples in ?EDASeq-Ex.R? failed The error most likely occurred in:

On Tue, 18-Dec-2007 at 11:21AM -0500, James W. MacDonald wrote: |> Duncan Murdoch wrote: |> > Yes, I agree. (As an aside, there's actually a capital S in |> > smoothScatter(), and it's a bit of a pain to install, because |> > geneplotter depends on something that depends on DBI, which is not so |> > easily available these days.) |> |> Somehow I always

Hello everybody, I'm here with a question concerning obtaining a greographical map with a smmothed scatterplot overlaying the intersted regions. My data are a set of opints, represented by long, lat coordinates. As far as the map is concerned, a shp file of Europe without countries borders (only coastal outlines) with the limits at lat 35N-60N long 15W-30E. Until now, I was only able to

I'm trying to make a set of contour plots of bivariate kernel density estimates, showing three such plots overlaid, similar to this plot http://euclid.psych.yorku.ca/SCS/Private/Test/ridge-boot2.pdf except that I would like to have the contours *filled* (using transparent colors). To make this reproducible, I've saved the results of KernSmooth::bkde2D() in the following file:

Hello R help list I have been using the smoothScatter function within the "geneplotter" package to make some graphs using a Sweave Rnw script called via Rscript in a DOS/Windows batch file. The Rscript will ultimately be called by a web service with time-out constraints, hence things need to run as swiftly as possible. The geneplotter package is currently loaded each time R is invoked

Hello: I have a problem when I tried to color the USA map with different colors. The following is my data (I only used the second column of data): alaska, 1, 2 Hawaii, 0, 0 USA, 5, 5 And here is my code: library("latticeExtra") library("mapproj") state<-read.table("C:\\usaclass.txt",sep=",") state

Hi all, I have 35 years, I have been working since I exit from University. I have returned to make a phd...I´m fortunatelly I´m working so unfortunatelly I have few time to study (I have also a baby with 16 months). I´m trying to use R but sometimes it gets very difficult. I´m trying to put this code in my polygon function colramp=colorRampPalette(brewer.pal(9,"YlOrRd") to use

Hello everybody, I'm trying to understand how to draw a smoothed scatterplot on a geographic map with R. Have a dataframe with point locations (long, lat) and was able to simply plot these points on a shp map by using the maptools package. However, instead of having simply the raw points on the map, I would like to have a "smoothed" scatterplot of the same superimposed on the map.

Hm..., Should these two versions produce the same solution? Unfortunately and shame to confess, I don't know much about the colors in R: myColors <- c("#FF7C00","#00BF40","#FFFF00") Colors=rgb2hsv(col2rgb(myColors)) apply(Colors,1,mean) h s v 0.2122974 1.0000000 0.9163399 * * * * * # Average the 1st two by taking the middle colour

Hi, I want to produce two parallel rotated strips with color gradient. So far, the sample strip is something produced by this: pushViewport(viewport(x = unit(0.638, "npc"), y =unit(0.386, "npc"), width=.62, height=0.006, angle=137.2)) grid.rect(y=100:1/100, just="top", gp=gpar(col=NA, fill=colorRampPalette(c("lightgray",

Dear R users, I like to plot a matrix A which looks like this: ,1 ,2 ,3 ,4 1, 1 10 100 1000 2, 0.5 0.2 1.0 4.3 3, 0.1 0.2 0.3 0.5 ..... where the 1st row is representing the X-axis values. The subsequent rows should be plotted on the y-axis. I would prefer to use the smoothScatter plotting function of the geneplotter package, but to begin with R I'd be happy to use

On 16/04/2016 8:47 AM, Atte Tenkanen wrote: > Hi, > > How would you calculate the "mean colour" of several colours, for > example c("#FF7C00","#00BF40","#FFFF00")? > Bert answered your subject line question. Your text is asking something else: if those are colours, you don't want to treat each of them as a single integer. A