Here are a few things I overheard at the useR! meeting. These comments and quotes do not necessarily represent my opinions (although many do) and since many of them were overheard in informal discussions and rants I will not name … Continue reading → [Read more...]

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Sitting in a dreary hotel room in San Jose with Interstate 101 on my left and a burger joint/truck stop on my right (see previous post Report from the meeting of the Ecological Society of America in San Jose for … Continue reading → [Read more...]

Problem Description: When running R2.6.0(built with MinGW) in PowerShell (PS__ /bin/R.exe), one can exit the running code with CTRL-C. However, the following situation is rather cratchy : the shell would (almost always) consequently omit the first ch... [Read more...]

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Just a brief update on my activities 11 days before the R package GillespieSSA is to be released. I have been hacking away on the code, debugging, and running test simulations like there is no tomorrow. The last SSA implementation … Continue reading → [Read more...]

I had some time to work some more on the QSAR functionality in Bioclipse. There is still much to do, but it is getting there. The calculation of a QSAR descriptor data matrixThis screenshot shows that multi-resource selection is now working, and that t... [Read more...]

This is a small function Venables and Ripley provide in their MASS book. You don't need it anymore because vcov() has a method for the glm class. However, it is useful to see how to extract bits from a fitted model object.vcov.glm #return the variance-covariance matrix of a ... [Read more...]

Sometimes it is helpful to see the plots created from the example files within R libraries. Of course you can paste them directly into R, but this web page allows you to view the images within the context of the help files:R Graphical ManualsAlso, chec... [Read more...]

Here’s my submitted abstract for the poster I will be presenting at the useR! 2007 meeting in August. GillespieSSA: A stochastic simulation package for R Mario Pineda-Krch Center for Animal Disease Modeling and Surveillance University of California, Davis Abstract Stochastic … Continue reading → [Read more...]

I just came across this bit of R trickiness when trying to improve the error messages for one of our packages. I tried adding a check at the C level for NA_REAL, but to no avail. The test failed even when I was certain that I was passing down ... [Read more...]

Finally took the leap and decided to go the ESA (Ecological Society of America) meeting despite it clashing with the useR! meeting. After checking out their smörgåsbord of a program there were simply too many yummy temptations, e.g. Alan Hastings … Continue reading → [Read more...]

Yesterday I decided that I will go the the useR! 2007 meeting after all. Initially I was a bit apprehensive, I was not sure if I had the time to spare and I like to present something when I go … Continue reading → [Read more...]

For a long time I have been puzzled by the apparent lack of a comprehensive Open Source computer algebra software, i.e. what Octave is to MatLab and what R is to S. In other words, where is the Open Source … Continue reading → [Read more...]

?relevel : The levels of a factor are re-ordered so that the level specified by ‘ref’ is first and the others are moved down. This is useful for ‘contr.treatment’ contrasts which take the first level as the reference. [Read more...]

In my previous post on this issue, I had presented a code that made weighted boxplots and annotated them with boxplot statistics and the mean values. The problem with that code was that it printed these annotations right on the vertical axes of the boxplots. Also, a relatively minor problem ... [Read more...]

I recently lost my documentation folder (oops), so I had to go online and retrieve the documentation files and tutorials that I find indispensible for working. I decided I’d save myself and everyone else the trouble by posting the list here. All of the files are available in PDF ... [Read more...]

Two methods. The first produces a vector, the second a one column matrix.x=1:10# Method 1rep(x,each=3)# Method 2matrix(t(matrix(x,length(x),3))) [Read more...]

This is how to use the Pixmap library to read in an image as a matrix.__ library(pixmap)# the next command may only work on Linux__ system("convert foo.tiff foo.ppm")__ img To get info on your new object: __ str(img)Although included in the previous output, the size ... [Read more...]

anglefun [Read more...]