Re: [R] package installation for Windows 7

2010-07-08 Thread David Bickel
Yes, the User into which I logged in before launching RGui is an Administrator. Correct, the problem is not limited to Bioconductor packages. David On 08/07/2010 8:55 AM, Duncan Murdoch wrote: On 08/07/2010 7:15 AM, Dave Bickel wrote: Neither biocLite nor the GUI menus can install packages on

Re: [R] package installation for Windows 7

2010-07-08 Thread David Bickel
Yes, the User into which I logged in before launching RGui is an Administrator. Correct, the problem is not limited to Bioconductor packages. David On 08/07/2010 8:55 AM, Duncan Murdoch wrote: On 08/07/2010 7:15 AM, Dave Bickel wrote: Neither biocLite nor the GUI menus can install packages o

Re: [R] package installation for Windows 7

2010-07-08 Thread David Bickel
Thanks, Joris. Your suggestion solved the problem without requiring me to run R as an administrator. Best regards, David On 08/07/2010 8:45 AM, Joris Meys wrote: Hi, I am running Windows 7 and R 2.11.1, and everything is installing just fine for me. Did you install R in the "Program Files" f

Re: [R] package installation for Windows 7

2010-07-10 Thread David Bickel
dr) Error in library(locfdr) : there is no package called 'locfdr' > setwd("C:/Users/dbickel/Documents") > library(locfdr) # ok The same error occurs whether or not I run R as administrator. Is there a work around or better solution? David On 08/07/2010 9:46 AM, David

Re: [R] package installation for Windows 7

2010-07-10 Thread David Bickel
"C:/Users/dbickel/R/win-library/2.11/", .libPaths())) Best regards, David On 10/07/2010 8:43 AM, Duncan Murdoch wrote: David Bickel wrote: Now that I have installed R outside "Program files" to get past the permissions problem, there are packages I can only access from certain

[R] Convergent series

2010-07-14 Thread David Bickel
What are some reliable R functions that can compute the value of a convergent series? David -- David R. Bickel, PhD Associate Professor Ottawa Institute of Systems Biology Biochem., Micro. and I. Department Mathematics and Statistics Department University of Ottawa 451 Smyth Road Ottawa, Ontari

[R] Mathematica and R

2010-07-14 Thread David Bickel
What are some effective ways to leverage the strengths of R and Mathematica for the analysis of a single data set? More specifically, are there any functions that can assist with any of the following? 1. Calling an R function from Mathematica. 2. Calling a Mathematica function from R. 3. Using

Re: [R] Convergent series

2010-07-14 Thread David Bickel
Thanks, Ted. I meant to post this previous reply to the list: On 10-07-14 07:43, David Bickel wrote: Hi Ted, Here are my translations to "integrate"-like syntax of a conflation of examples from the following Mathematica pages: x <- 2.232; sum(f = function(n) {x^n/factorial(n

Re: [R] Mathematica and R

2010-07-15 Thread David Bickel
nd," a GUI that enables Mathematica users to easily keep commands, output, and plots in the same file. Best regards, David On 10-07-14 10:24, Marc Schwartz wrote: On Jul 14, 2010, at 6:59 AM, David Bickel wrote: What are some effective ways to leverage the strengths of R and Mathemati

Re: [R] Mathematica and R

2010-07-16 Thread David Bickel
:24, Albyn Jones wrote: Take a look at Sage, which is an open source alternative. It already integrates R (http://www.sagemath.org) albyn Quoting David Bickel : What are some effective ways to leverage the strengths of R and Mathematica for the analysis of a single data set? More

Re: [R] coxme AIC score and p-value mismatch??

2010-08-22 Thread David Bickel
You noticed that the AIC increases while the p-value decreases as you change the model and hold the data fixed. There would be more indication of a problem if you instead noticed the same relationship between the AIC and the p-value as you changed the data and held the model fixed. David On

[R] shade between two curves

2011-02-04 Thread David Bickel
Is there a function that can shade the region between two arbitrary curves? For example, how can I fill in the area between these two plotted curves? > x <- 1:10 > y <- x + rnorm(10) > z <- x + 10 + rnorm(10) > plot(x, y, type = "l", ylim = c(0,20)) > lines(x, z) I would appreciate any help. Dav

[R] shade between two curves

2011-02-04 Thread David Bickel
Is there a function that can shade the region between two arbitrary curves? For example, how can I fill in the area between these two plotted curves? > x <- 1:10 > y <- x + rnorm(10) > z <- x + 10 + rnorm(10) > plot(x, y, type = "l", ylim = c(0,20)) > lines(x, z) I would appreciate any help. Dav

[R] shade between two curves

2011-02-04 Thread David Bickel
Is there a function that can shade the region between two arbitrary curves? For example, how can I fill in the area between these two plotted lines? > x <- 1:10 > y <- x + rnorm(10) > z <- x + 10 + rnorm(10) > plot(x, y, type = "l", ylim = c(0,20)) > lines(x, z) I would appreciate any help. Davi

[R] confidence intervals for noncentrality parameters

2011-03-13 Thread David Bickel
Is there any quick way to compute confidence intervals for the noncentrality parameter of the noncentral chi-square family? I get an error when installing the Deducer package. I would appreciate any help. David __ R-help@r-project.org mailing list http

[R] R_PROFILE problem (UNIX)

2008-05-01 Thread David Bickel
R does not seem to recognize my R_PROFILE: $ cat $HOME/etc/Rprofile.site a <- 3 $ cat "$R_PROFILE" a <- 3 $ R > a Error: object "a" not found > version _ platform sparc-sun-solaris2.10 arch sparc os

[R] 3-D plot of likelihood

2007-12-10 Thread David Bickel
Could anyone recommend a package for visualizing a likelihood function of two scalar parameters? I would prefer a three-dimensional plot similar to the kind Mathematica is known for, perhaps generated by a package not specific to likelihood. David __ David R. Bickel Ot

[R] likelihood from test result

2008-01-09 Thread David Bickel
Is there any automatic mechanism for extracting a likelihood or test statistic distribution (PDF or CDF) from an object of class "htest" or from another object of a general class encoding a hypothesis test result? I would like to have a function that takes "x", an object of class "htest", as its o

[R] high RAM on Linux or Solaris platform

2007-10-30 Thread David Bickel
To help me make choices regarding a platform for running high-memory R processes in parallel, I would appreciate any responses to these questions: 1. Does the amount of RAM available to an R session depend on the processor (Intel vs. Sun) or on the OS (various Linux distributions vs. Solaris)? 2.

Re: [R] high RAM on Linux or Solaris platform

2007-10-31 Thread David Bickel
others. Best regards, David -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: Tuesday, October 30, 2007 4:51 PM To: Thomas Lumley Cc: David Bickel; [EMAIL PROTECTED] Subject: Re: [R] high RAM on Linux or Solaris platform On Tue, 30 Oct 2007, Thomas Lumley wrote