similar to: attempted merge() returns: cannot coerce type 'closure' to vector of type 'any'

Esteemed UseRs and DevelopeRs, Just coming to terms with the very attractive proportional venn gernator, venneuler(), but would like to customize a few things. Is it possible to- -suppress all circle labels? -suppress only certain circle labels? -print specific text strings at specified locations within the circles? and unions? -specify circle colors? -specify label font, size & color?

Esteemed R-users, heatmap.2() is yielding an inappropriate key based on my colors and break-points. In the reproducible example below, the key is inappropriate (to me) because- 1. 'Orange' is simply not represented in the key, despite its prescence in the heatmap. 2. The proportions of the key are clearly out, ie., my largest bin, (0.1 - 0.2) is half the range, but this bin (colored

Esteemed useRs and developeRs, I need to create a '3D line plot' (proper name?) of which an excellent example can be viewed here: http://cococubed.asu.edu/images/87a/images/unknown_pleasures.jpg I have some experience using the rgl package to create 3D PCA plots, but have no idea where to start for an image like this. I'd really appreciate suggestions & help on how might

Esteemed UseRs and DevelopeRs, Apologies if this question belongs else where, but it does concern R's package installation/maintenance. How does one start R within Emacs/ESS with root privileges? I tried without success: > M-x sudo R Why i'm motivated to do so: It seems logical to me, as the only user of the PC, to keep my R library consolidated in the universal library rather

Esteemed UseRs, This must be embarrassingly trivial to achieve with e.g., melt() and cast(): deduplicating records ("pw.X" in example) for a given set of responses ("cond.Y" in example). Hopefully the runnable example shows clearly what i have and what i'm trying to convert it to. But i'm just not getting it, ?cast that is! So i'd really appreciate some ones

How to remove all R objects in the RAM except for a few specified ones? rm(list=ls()) removes all R objects in the R work space. Another question is that whether removing all R objects actually releases the RAM? Thanks. -- View this message in context: http://r.789695.n4.nabble.com/How-to-remove-all-objects-except-a-few-specified-objects-tp2335651p2335651.html Sent from the R help mailing list

arima1 = arima(data.ts[1:200], order = c(1,1,1)) arima2 = arima(data.ts[5:205], order = c(1,1,1)) arima3 = arima(data.ts[10:210], order = c(1,1,1)) arima4 = arima(data.ts[15:215], order = c(1,1,1)) arima5 = arima(data.ts[20:220], order = c(1,1,1)) arima6 = arima(data.ts[25:225], order = c(1,1,1)) arima7 = arima(data.ts[30:230], order = c(1,1,1)) arima8 = arima(data.ts[35:235], order = c(1,1,1))

I was wondering if anyone could help me figure out how to make a Venn diagram in R where the circles are scaled to the size of each dataset. I have looked at the information for venn (in gplots) and vennDiagram (in limma) and I cannot seem to figure out what parameter to change. I have looked this up online and do not seem to be seeing anyone else who has posted this question or the answer to it

Esteemed useRs and Devs, Attempts to update package:rJava to the latest version have failed. See my code and output below. Notably, as suggested here http://stackoverflow.com/questions/3311940/r-rjava-package-install-failing $ sudo apt-get install r-cran-rjava ran successfully without error or warning, but my rJava package is not updated, and remains un-updatable... Greatly appreciate any

Dear R Users, I employed the phyper() function to estimate the likelihood that the number of genes overlapping between 2 different lists of genes is due to chance. This appears to work appropriately. Now i want to try this with 3 lists of genes which phyper() does not appear to support. Some googling suggests i can utilize the Multivariate hypergeometric distribution to achieve this. eg.:

Dear List, I'd really appreciate tip's or code demonstrating how i can achieve some common axis labels integrated into a multiple plot. In my example (below), i'm trying to achieve: -a single "Results 1 (Int)" centered & btwn row 1 and row 2; -a single "Results 2 (Int)" centered & btwn row 2 and row 3; and, -a single "Results 3 (Int)" centered

Esteemed UseRs, I've got many biggish data frames which need a lot subsetting, like in this example: # example eg <- data.frame(A = rnorm(10), B = rnorm(10), C = rnorm(10), D = rnorm(10)) egsub <- eg[eg$A < 0 & eg$B < 1 & eg$C > 0, ] egsub egsub2 <- eg[eg$A > 1 & eg$B > 0, ] egsub2 # To make this clearer than 1000s of lines of extractions with [] # I

Hi Chakravarthy, [dont forget to Cc the list for useRs with the same Q.] If you're trying to reuduce the isze of your row or column labels, i think the following arguments of heatmap.2 {gplots} is what you want to adjust- 'cexCol' and 'cexRow'. Specifically on my question that you ask about, i found the BioC forum helpful:

Esteemed R Users, Would some one be patient enough to explain the variation i see when creating .pdf file output for my plots? FYI- my goal is produce the highest quality .pdf output from the R 'command line' as opposed to using the menu of the acitve graphics window. Im using 32bit WinXP. Session info at the bottom. I have Ghostscript v8.71 installed and in the Path such that

Esteemed R UseRs, Regarding specifying arguments in functions and calling functions within functions: ## beginning ## ## some data ex <- rnorm(10) ex[5] <- NA ## example function Scale <- function(x, method=c("mean", "median")) { scl <- method scl(x) } ## both return NA Scale(ex, method=median) median(ex, na.rm=FALSE) ## both return the median Scale(ex,

Esteemed R-forum subscribers, I'm having a tough time configuring contrasts for my 3-way ANOVA. In short: I don't know how to configure (all) my contrasts correctly in order to specify (all) my comparisons of interest. I succeeded getting my contrasts of interest set up for a simpler 2-way ANOVA based on the fairly intuitive logic of the design col.names. But i'm not able to

Esteemed R users and developers, How does one 'programatically' list or call objects for use in a function? For example, i thought i could do something better than this: save(A.cwb, B.cwb, C.cwb, D.cwb, E.cwb, F.cwb, file="afile.RData") with something like these- prfxs <- c("A", "B", "C", "D", "E", "F") #**

I was looking for all the glm-related 'family' functions in stats using the following predicate that returns TRUE for any function whose first argument is called "link". is.family <- function(object) is.function(object) && identical(names(as.list(object))[1], "link") It threw an error when applied to SSfol > is.family(SSfol) Error in

Esteemed R user's, I'm struggling to achieve some details of a heatmap using heatmap.2(): 1. Change label locations, for both rows & columns from the default right & bottom, to left and top. Can this be done within heatmap.2()? Or do i need to suppress this default behavior (how) and call a new function to relabel (what) specifying locations? 2. Change the angle of the

Hi, I have a problem with R, after an update: this piece of code: cat("creating resolver data frame\n"); dfG<-cbind(dfG,2^(RGN$G)) dfR<-cbind(dfR,2^(RGN$R)) suddenly, creates values to inf. Is the syntax changed for the ^ symbol in the latest R downloadable version? Kind regards, wilfred -- Dr. Ir. Wilfred Van IJcken Labmanager Genomics Erasmus Center for Biomics,