similar to: Fwd: comparing heatmaps

Dear all, I've been trying to find how to compare tow different heatmaps but I'm having trouble getting the colors bar to be the same. I'm doing something like the following: library(gplots) dat<-cor(matrix(rnorm(100, m=10), nrow=10)) mat<-cor(matrix(rnorm(100), nrow=10)) dev.new() heatmap.2(mat, Rowv=NA, Colv=NA, col=redgreen(75), symm=TRUE, trace="none",

Is there a way of listing the variables contained in a file created with the save() command other than load()ing the file? I have a couple of rather larger files that I would rather not load ... Benno Pütz MPI of Psychiatry Tel: +49+(0)89-30622 222 Kraepelinstr. 2 Fax: +49+(0)89-30622 601 80804 Munich, Germany puetz@mpipsykl.mpg.de [[alternative HTML

Posting for a friend Begin forwarded message: From: "Geier, Florian" <florian.geier08@imperial.ac.uk<mailto:florian.geier08@imperial.ac.uk>> Subject: Fwd: readBin fails to read large files Date: September 1, 2011 4:10:53 PM GMT+01:00 To: Begin forwarded message: Date: 1 September 2011 16:01:45 GMT+01:00 Subject: readBin fails to read large files Dear all, I am trying

Hello, I am trying to create a heatmap that clusters based on a k-means scheme rather than a hierarchical clustering scheme. Suppose I have the following input data, located in sample.table: x1 x2 x3 x4 x1 17.198 16.306 16.806 16.374 x2 14.554 10.866 15.780 14.596 x3 14.374 14.118 14.569 17.352 x4 17.505 14.596 15.738 14.070 By using the heatmap.2 function as follows, I can create a heatmap

Hello all R-er, I'm trying to run a resampling method on some data. The current method I have takes 2+ days or a lot of memory . I was wondering if anyone has a better suggestion. Currently I take a matrix and get the correlation matrix from it. This will be called rho.A. Each element in this will be tested against the distribution from the resampled correlation B matrix. Some example

Hello! I looked for help through google and the help-files and spend several hours with trial and error, but didn't find a correct way. It's all about lines in a heatmap to separate different data block from each other to underline the significance of the found clusters! The heatmap is build like that: heatmap(X, Rowv=NA, Colv=NA, symm=TRUE, cexRow=0.3, cexCol=0.3) I switched the

Please help, I tried a program on S-plus, and it worked. Also I tried the same program on R but not worked. Here is the programme. I put it in a function form. The model and assumption are at the bottom. where counts<-c(22,2,2,0,5,7,14,0,0,2,36,0,0,1,17,10) which is name.data, i is row size and j is the column size. symmetry function(i, j, name.data) { row <- (c(1:i)) col <-

On Mon, Oct 10, 2016 at 5:02 PM, Hal Finkel <hfinkel at anl.gov> wrote: > ----- Original Message ----- >> From: "Sebastian Pop" <sebpop.llvm at gmail.com> >> To: "Hal Finkel" <hfinkel at anl.gov> >> Cc: "Sebastian Paul Pop" <s.pop at samsung.com>, "llvm-dev" <llvm-dev at lists.llvm.org>, "Matthias

Hi all, I tried testing with Rspec for first time, following a tutorial. "rspec spec/" works fine but when I try ''autotest'' it gives me the error message below. I also made a gist about it: https://gist.github.com/779265 It seems like a redgreen or ZenTest error. I''m using Ubuntu10, Rails3, Ruby 1.9 and RVM. Any help is appriciated, thanks in advance, gezope

On Fri, Oct 14, 2016 at 6:10 PM, Hal Finkel <hfinkel at anl.gov> wrote: >> polybench/linear-algebra/kernels/symm, FP_ABSTOLERANCE=1e1 >> polybench/linear-algebra/solvers/gramschmidt, FP_ABSTOLERANCE=1e0 >> What should be a good relative tolerance to set for these two tests? > > What's the minimum relative tolerance that you need for them to pass? Setting

Hello, I have a large (919 X 919), hierarchically clustered heatmap that I would like to read the labels off of. I have tried saving the figure in pdf format and enlarging it until I can see the labels, but if I make the labels small enough to read (so that they don't overlap) using cexRow and cexCol, they do not appear in the pdf. The limit seems to be anything below cexRow or Col = 0.06.

on hp-ux 11 i see: $ date;ssh jenny Fri Oct 12 14:44:13 PDT 2001 Last successful login for stevesk: Fri Oct 12 10:45:42 PST8PDT 2001 on pts/2 Last unsuccessful login for stevesk: Mon Sep 24 22:55:53 PST8PDT 2001 Last login: Fri Oct 12 10:45:43 2001 from 172.31.1.53 You have mail. so solaris PAM is different. can other solaris+PAM users confirm this? On Fri, 12 Oct 2001, Benn Oshrin wrote:

Good afternoon, I ran heatmap and hclust on the same matrix x (strictly, I ran heatmap(x), and hclust(dist(t(x))), and realized that the two dendrograms were slightly different, in that the left-right arrangement of one pair of subclusters (columns) was reversed in the two functions (but all individual columns were grouped correctly). Looking through the code for heatmap as a most definite

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",

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

On Jan 20, 2008 7:52 PM, G-man <gregor007 at gmail.com> wrote: > I''ve set up my tests, and when I run the whole thing, I get this for my > views: > > 3) > NoMethodError in ''/chapters/new.html.erb should render new form'' > undefined method `process_clean_up_fixtures'' for >

Hi , I am trying to plot a heatmap with a correlation matrix and trying to highlight significant correlations . i am using my matrix d874n has 78 columns ex2<-corAndPvalue(data.matrix(d874n),use = "pairwise.complete.obs") ##creating a matrix of true false using p values sig<-ex2$p<0.05 nx=78 ny=78 makeRects <- function(tfMat,border){ cAbove =

Hello, I have come across some unexpected behaviour of the function heatmap in the stats package. This looks like a bug to me, but I might have misunderstood something. When calling the function in symmetric mode, the ColSideColors are plotted correctly, but RowSideColors appear in reverse order. This code (modified from the example on the help page) demonstrates the problem: cU <-

Hello all, I''m new to rSpec but after reading a couple of tutorials I''ve become enamored. Anyway, I am at minute 42 of the rSpec basics screencast ( peepcode.com) and I''m having the following error running autotest w/rSpec: D:\ruby\projects\forecaster>autotest loading autotest/rails_rspec c:\ruby\bin\ruby -rrubygems -e "require ''redgreen''"

Hi, I would need some help to fix polybench/symm: void kernel_symm(int ni, int nj, DATA_TYPE alpha, DATA_TYPE beta, DATA_TYPE POLYBENCH_2D(C,NI,NJ,ni,nj), DATA_TYPE POLYBENCH_2D(A,NJ,NJ,nj,nj), DATA_TYPE POLYBENCH_2D(B,NI,NJ,ni,nj)) { int i, j, k; DATA_TYPE acc; /* C := alpha*A*B + beta*C, A is symetric */ for (i = 0; i < _PB_NI; i++) for (j = 0; j < _PB_NJ; j++) {