similar to: lattice package: line end style

Hi R friends, I've been attempting to create plots with multiple alpha values using Cairo to save them on a windows (32b XP) platform as it doesn't support more than 3 alpha values. This worked well until I wanted a postscript file (unsupported) and as a attempted work around I installed RGtk2. So far so good, however now when I try to use a >CairoPDF("alpha.pdf", 6, 6,

Hi I hope someone can shed some light on this: For some reason when I read.table("bfx.txt") R decides to only give back the first character from each column in each row as one single column. Like this: V1 1 ÿþr 2 \n 3 r 4 1 5 0 6 A 7 G 8 \n 9 r 10 1 11 0 12 T 13 C 14 \n The data should be:

Hi The cor function in the stats package calculates the correlation between columns of data, does anyone know if it is at all possible to calculate the correlation between rows instead ? Or is there an appropriate package or function that is more appropriate I'd like to calculate spearman & pearson correlations between rows. Many thanks Jason -- --------------------------------

Hello Please find bug report attached. Thanks Matthew -- Matthew Gillman Team 105: Variation Informatics Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK Tel: 01223 834244 Ext. 4922 -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered

Hi, How might I use xyplot to plot segments where the segments are in the input data? (ie a directed acyclic forest). Here's an example in base graphics: n = data.frame(id = c(1,2,3,4), parent = c(0,1,2,2), value = c(5,5.5,7,3), date = c(1,2,3,3.5)) plot(n$date, n$value) do.call( segments, with( merge(n,n,by.x="parent", by.y="id"),

Dear expeRts, I would like to colorize the backgrounds of a pairs plot according to the respective panel number. Here is what I tried (without success): count <- 0 mypanel <- function(x, y, ...){ count <<- count+1 bg. <- if(count %in% c(1,4,9,12)) "#FDFF65" else NA points(x, y, cex=0.5, bg=bg) } U <- matrix(runif(4*500), ncol=4) pairs(U, panel=mypanel) I

library(nlme) data(Phenobarb) na.include <- function(x)x phe1 <- nlme(conc~phenoModel(Subject, time, dose, lCl, lV), data = Phenobarb, fixed = lCl+lV~1, random= pdDiag(lCl+lV~1), start = c(-5,0), na.action = na.include, naPattern = ~!is.na(conc)) phe.ranef <- ranef(phe1,augFrame=TRUE) plot(phe.ranef, form=lCl~Wt+ApgarInd) [Error in max(length(x0),

I wish to create a multipanel plot (map) from several datasets ("d" and "q" in the example below). I can condition the main xyplot statement on the "site" variable, but I don't know how to pass a conditioning variable to panel.xyplot plot so that the x-y coordinates from dataset q are only plotted at the appropriate site. library(lattice) d <-

Hi All, I am plotting vertical lines using xyplot in lattice and type="h". It works well, but the problem is that the tops of the lines are convex and the bottoms are concave. Is there a way to flatten the tops and bottoms? Here's my code: Source<-matrix(1:30,10,3) colnames(Source)<-c("x","y1","y2") Source<-data.frame(Source) xyplot(y2+y1~x,

Dear R-Users, how to include error bars within lattice? How should the panel = function(x,y,...){ looks like? Does panel.arrows works here as well? I appreciate any help on this. Regards, Mario AT [[alternative HTML version deleted]]

Hello, I have been trying to make a graph that have error bars and text at specific position. I used the following code from the help file of xYplot(Hmisc) as an example except I add a myPanel function, which is just supposed to add letters from the alphabet at the position aligned at y = 3. It constantly gives me error: "Error using packet 1 argument "subscripts" is

Dear r-help, Sleep-deprivation from having 2 youngsters under 2 around the house is fuzzing my brain, so please be gentle if the answer to this query is obvious! In the example below, I'm trying to use grid.rect to add grey rectangles to the panels of a lattice plot to indicate which months spawning occurred of a (very cute) native Tasmanian fish. The fish in the two lakes spawned at

Hi, The solution to my problem is to use 'lsegments' instead of 'segments' within lattice commands. (Although I wont forget again, a comment in the segments help file referring to 'lsegments' might help others not to make the same mistake in the future.) My thanks to Renaud Lancelot. Regards, John. John Gavin <john.gavin at ubsw.com>, Quantitative Risk Models

Dear friends - please give me a hand. I have a dataset of 40 patients in two groups observed on three occasions. I only want to plot a line for each patient in the two groups. I use the ltext function to put the patient number but fail to make lattice understand the numbers as unique since apparently it starts all over with 1:20 for each panel instead of respecting my desires to have 1:20

Dear R-users, A while ago, Deepayan Sarkar suggested some code that uses the group argument in bwplot to create some 'side-by-side' boxplots (https://stat.ethz.ch/pipermail/r-help/2010-February/230065.html). The example he gave was relatively specific and I wanted to generalize his approach into a function. Unfortunately, I seem to have some issues passing the correct arguments to the

Hi further to my upgrade question thanks for pointing me in the right direction any ideas how I get round the following problem: I'm trying to install on a Tru64 alpha ecs1h[jps]69: make `Makedeps' is up to date. `libappl.a' is up to date. `Makedeps' is up to date. `libnmath.a' is up to date. `Makedeps' is up to date. `libunix.a' is up to date. `Makedeps' is up

Hi All Not sure if this a bioconductor question or general R mailing list so apologies if this has gone to the wrong one................. When plotting dendrograms created by hclust you can "identify" clusters by clicking on the graphics and returning a list of what is contained in each cluster. However I'd like to be able to "zoom in" on specific clusters and plot

HI All sorry if this question has already been asked but I couldn't find anything that answered my question I have 24 columns of data that I'm trying to plot in heatmap.2 (gregmisc) and I'm having difficulty ordering them except in numerical sequence: I have transposed my matrix so it will appear with the dendrogram I want appearing at the top of the heatmap If I use either of

Original the array was attach to an HP server via a Smart Array Controller.(which I didn't setup, I just inherited the problem) This controller no longer recognizes the array even though the front panel of the array indicates its intact. I then took the array and plugged it into my Centos server and it recognized it ... cat /proc/scsi/scsi Attached devices: Host: scsi0 Channel: 00 Id: 00 Lun:

Hi, I would like some extra information on the 'cgh' package in R. I noticed that there isn't much activity regarding this package on the R and BioC mailing list (I googled it). I started using this package and I have few questions: 1/ As I have a custom tiling like array @8um features resolution (affy), I have a lot of probes to work with. I'm assuming it is correct to