search for: denscols

Hi, I was trying to make a 3D plot using densCols. The documentation for densCols doesn't look like it'll work for 3D. For example: ----------------------------------------- library(scatterplot3d) v1 <- rnorm(10000) v2 <- rnorm(10000) v3 <- rnorm(10000) ## 2D with denscols mat1 <- cbind(v1,v2) mcols1 <- densCols(mat1) plo...

Hi, I'm using the densCols function for a scatterplot and cannot figure out 1) how to extract the computed densities, and 2) how to create a legend based that represents the upper and lower ranges of the densities. For example: movers.den <- densCols(move$x, move$y) table(movers.den) #08306B #083775 #083B7C #083D7E #39...

...x <- rbind(x1,x2) layout(matrix(1:4, ncol=2, byrow=TRUE)) op <- par(mar=rep(2,4)) smoothScatter(x, nrpoints=0) smoothScatter(x) smoothScatter(x, nrpoints=Inf, colramp=colorRampPalette(brewer.pal(9,"YlOrRd")), bandwidth=40) colors <- densCols(x) plot(x, col=colors, pch=20) par(op) But I can't even get the example to work. I have installed geneplotter and RColorBrewer, but I get the messages " Error: could not find function "smoothScatter" Error: could not find function "densCols" I thought it was someth...

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 att...

Dear R users, I'm trying to create images of 2 symmetrical matrices using heatmap.2 of the 'gplots' library. Both matrices have the same row and column names For the first matrix I'm using the default clustering and column denrogram options: heatmap.2(Matrix1, symm=T, breaks=20, col=rich.colors(19), main="matrix1", density.info="histogram",

...t none the less I wanted to mention this strange behaviour. Could it be a bug? Regards, Florian Here is my NAMESPACE file: export("analysePlate", "as.all", "barploterrbar", "combineFrames", "csApply", "ddCt", "densCols", "eListWrite", "fitNorm2", "getPradaPar", "histStack", "plotNorm2", "plotPlate", "readCytoSet", "readFCS", "readSDM", "removeCensored", "setPradaPars&quo...

...t none the less I wanted to mention this strange behaviour. Could it be a bug? Regards, Florian Here is my NAMESPACE file: export("analysePlate", "as.all", "barploterrbar", "combineFrames", "csApply", "ddCt", "densCols", "eListWrite", "fitNorm2", "getPradaPar", "histStack", "plotNorm2", "plotPlate", "readCytoSet", "readFCS", "readSDM", "removeCensored", "setPradaPars&quo...

I am using attributes colsep and sepwidth from heatmap.2 function, however when using larger values for sepwidth the following columns are not moved to the right but the seperator is covering the column(s) with a white bar and the column labels and ColSideColors remain at their positions, is this intended? I expected the following columns to be shifted to the right by sepwidth. Is there a way

I have written a wrapper for heatmap.2 called heatmap.w.row.and.col.clust which auto-generates breaks using breaks<-round((c(seq(from=(-20 * stddev), to=(20 * stddev))))/20, digits = 2) #(stddev in this case = 2.5) This has always worked well in the past but now I am getting an error that non-finite breaks are being generated. Drilling down, it seems that my wrapper is generating finite

Hi, I am using the densCols to draw a high volume scatter plot. Instead of using the default local density, I would like to take log of the local density and then map them to the colors. I could not figure out how to do that. For example: plot(x,y,col=densCols(x,y,"log")) ? Any help would be appreciated! Jiaxiu...

Hi all, I am using the vegan package to run a prcincipal components analysis on forest structural variables (tree density, basal area, average height, regeneration density) in R. However, I could not find out how to extract factor loadings (correlations of each variable with each pca axis), as is straightforwar in princomp. Do anyone know how to do that? Moreover, do anyone knows