Monthly Archives: March 2011

Two R functions for working with DNA alignments

March 28, 2011
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Recently I wrote a couple of small functions as a result of work done by myself and others in my lab group. The first is a function that determines what sites in a sequence alignment are ambiguous (i.e. not A, G, C or T). require(ape)data(woodmouse)is.ambig    x    bases    ambig    ambig > 0}is.ambig(woodmouse)This function utilises the bit-level coding scheme that...

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Reminder: useR! 2011 abstracts, earlybird registration deadline April 1

March 28, 2011
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If you're planning to attend the worldwide R user conference useR! 2011, don't forget that April 1 (this Friday) is the deadline for submitting abstracts for contributed talks and posters. Early-bird discounts for attendee registrations expire on Friday as well. (Revolution Analytics is a proud sponsor of useR! 2011, and chief scientist Lee Edlefsen is one of the keynote...

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Time series

March 28, 2011
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Time series

(This post got published on The Statistics Forum yesterday.) The short book review section of the International Statistical Review sent me Raquel Prado’s and Mike West’s book, Time Series (Modeling, Computation, and Inference) to review. The current post is not about this specific book, but rather on why I am unsatisfied with the textbooks in

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Using R and snow on Ohio Supercomputer Center’s Glenn cluster

March 28, 2011
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Over the last several days, I have had the “pleasure” of getting parallel processing with R running on the the Ohio Supercomputer Center’s (OSC) Glenn cluster. I am working on a project that uses GenMatch from Sekhon’s Matching, which uses … Continue reading →

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Day #12 5 ways to visualize plots in knime

March 28, 2011
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Today I’m checking which plot function works fastest, I did this via this blogpost. http://www.r-bloggers.com/five-ways-to-visualize-your-pairwise-comparisons/ But I’m not doing this in an Rgui, but in Knime. I read in an example ACS file, ...

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Volatility Violins

March 28, 2011
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Volatility Violins

Unlike many humans, markets love change. In fact, they look forward to it with great anticipation. Regular people like stability, for the most part. Unless you're a career gypsy, you like to stay in one place for some time. Making a home. Settling in, ...

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GUIs for R

March 28, 2011
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A recent post listed at R Bloggers (http://www.r-bloggers.com/r-guis-which-one-fits-you/) made some erroneous statements about R Commander. Here is a revised description of R Commander with some issues addressed from the earlier blog:R Commander works ...

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GUIs for R

March 28, 2011
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A recent post listed at R Bloggers (http://www.r-bloggers.com/r-guis-which-one-fits-you/) made some erroneous statements about R Commander. Here is a revised description of R Commander with some issues addressed from the earlier blog:R Commander works ...

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A Lattice Panel Function for Filled Polygons that Accounts for Missing Data

March 28, 2011
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A Lattice Panel Function for Filled Polygons that Accounts for Missing Data

This is a quick update to some code posted while back, related to plotting filled polygons within a lattice panel function. After attempting to use the originally described function to plot data with NA, I quickly realized that a more robust approach w...

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R Tutorial Series: 2011 ANOVA Article Data

March 28, 2011
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R Tutorial Series: 2011 ANOVA Article Data

Having wrapped up a recent flurry of R ANOVA articles (and exhausted my knowledge of the subject), I decided to take a look at the R Tutorial Series' Google Analytics data from the past few months. Since I posted the Two-Way Omnibus ANOVA article on J...

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