similar to: CRAN task view for genetics

Hi all I have made some changes to a package (SimHap) I wrote a couple of years ago, and it has passed R CMD check under windows, but under linux (ubuntu jaunty) I am getting the following error: * installing *source* package 'SimHap' ... ** R Error in parse(outFile) : 2:1: unexpected $end ERROR: unable to collate files for package 'SimHap' Does anyone know what the

Dear all, I was wondering if someone could point me in the right direction to solve a problem I've encountered. I have a set of S-plus scripts which call an external program to analyse the data (the external program is called Genehunter and is used for genetic analysis). There are a six scripts in total, five of which are called from the main script. I made a few changes like changing

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Can R handle graphic text ? I mean something like a pop-up message window or a text widget ? Thank you so much. -- Maura E.M

Hi, I'm scratching my head as to why I can't use the subset() command to remove one line of data from a data frame. There is just one row (out of 45840) that I'd like to remove and it can be identified using.... > dim(raw.all.clean) [1] 45840 10 > subset(raw.all.clean, Height.1 == 0 & Height.2 == 0) Sample.Name Well SNP Allele.1 Allele.2 Size.1 Size.2

Dear all, Thanks to those of you who have replied, the majority of the comments pointed out that the error caused by scan may originate from another function, and closer inspection of the output from traceback() reveals that it is in fact the read.table function where the error is originating from the full output of which I have included below. The error msg I recieve is Error in

I am posting this to both R and BioC communities because I believe there is a lot of confusion on this topic in both communities (having searched the mail archives of both) and I am hoping that someone will have information that can be shared with both communities. I have seen countless questions on the BioC list regarding limma (Bioconductor) and its calculation of FDR. Some of them involved

I am posting this to both R and BioC communities because I believe there is a lot of confusion on this topic in both communities (having searched the mail archives of both) and I am hoping that someone will have information that can be shared with both communities. I have seen countless questions on the BioC list regarding limma (Bioconductor) and its calculation of FDR. Some of them involved

Hi folks, I was wondering if anyone could confirm/deny whether there exists any kind of package to facilitate zoomable graphs with multiple plots (eg, plot(..) and then points(..)). I've tried zoom from IDPmisc, and iplot from the iplot and iplot extreme packages, but as far I can tell, neither can handle the task. Does anyone know anything else that might work? Or generally know

> I am trying to produce a heatmap of pairwise correlations, but since the matrix is > symmetric, I only need either the upper or the lower triangle. I have scoured the > web and R documentation, but I have not been able to find a way to produce such a > figure. Is there a simple way to produce a heat map with only the part above or > below the diagonal? You might want to check

Hi, I noticed recently when installing the GDD package for R under GNU/Linux that it required the gd library (http://libgd.org/) for generating graphics. The resolution of this was to simply install the library on my system, and then GDD successfully installed without any complaints. However, the variant of GNU/Linux that I use is Gentoo, so I filed a bug requesting that a USE flag be set for

Hi, I'm trying to cast() some data, but keep on getting the following error... > norm.all.melted.height <- transform(all.melted.height, + norm.height = value / ave(value, SNP, Pool, FUN = max) + ) Warning messages: 1: In FUN(X[[147L]], ...) : no non-missing arguments to max; returning -Inf 2: In FUN(X[[147L]],

The CRAN Taskviews (http://cran.r-project.org/web/packages/Views/) is currently unavailable and returns 404 Object not found! This is possibly due to them now being linked from the side frame and the URL now being http://cran.r-project.org/web/views/ Unfortunately the webmaster link on the 404 page does not have any email address associated with it, hence the mail to the list. Neil -- View

I'm trying to network boot a thin client using pxelinux. I had this working about a year ago but have since reinstalled my OS (went from RH9 to FC2). I'm using atftpd. The thin client gets the dhcp address fine and requests pxelinux.0. Eventually, it just times out. Here's the relevant info from /var/log/messages: Oct 7 23:14:36 home atftpd[4717]: Advanced Trivial FTP server started

Hi all, I've just started using the Friedrich Leisch's Sweave package to generate LaTeX reports with results of my analyses embedded as required. I've encountered a bit of a problem though in the processing of the resulting *.tex file that is as far as I can tell, down to the fact that my variable names have underscores ('_') in their names. The relevant section of code

As far as I know there isn't anything available for this, but I thought I'd check before working up something of my own. Is there a way to query Amazon SimpleDB and import the data results directly into R? Cheers, Tim.

Dear R Users, Does anyone know of a package which can generate random realisations of a double-exponential jump diffusion process with a drift ? Something where I can specify the likelihoods of an up or a down jump, the drift rate, and the mean size, and get back a vector of realisation of the process (for purposes of a Monte-Carlo). Kind regards, Tolga

Hi there, I hope to draw a plot like this: http://www.sg-chem.net/swizard/Ru-bqdi-spectra.gif is it possible to draw it using R? thanks for any suggestions. regards, Jinsong

I am trying to get a measure of how R compares in usage as a statistical platform compared to other software. I would guess it is the most widely used among statisticians at least by virtue of it being open source. But is there any study to which I can refer? By asking this list I am not exactly adopting a rigorous approach! Best wishes John John Logsdon

We have R 2.2.1 installed on a Linux cluster that seems to have problems loading either of our shared object libraries for packages. This seems to be happening on both local and global versions of packages that we install. However, we have only noticed this problem in the past 3 months on this R installation, whereas some users had success before then. It could be that something on our system