Monthly Archives: October 2010

Reassembling logical operations on boolean vectors in Gnu R

October 13, 2010
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What a headline.. It's about combining boolean vectors in R.

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Animated plots in R and LaTeX

October 12, 2010
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Animated plots in R and LaTeX

I like to use animated plots in my talks on functional time series, partly because it is the only way to really see what is going on with changes in the shapes of curves over time, and also because audiences love them! Here is how it is done. For LaTeX, you need to create every

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Lists of English Words

October 12, 2010
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Lists of English Words

When I was a kid, I went through an 80s music phase…well, some things never change. “People just love to play with words…” Know that song? Anyway… One of the biggest pains of text mining and NLP is colloquialism — language that is only appropriate in casual language and not in formal speech or writing. Words such as informal contractions...

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RHIPE in the SD Times

October 12, 2010
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Saptarshi Guha, who we profiled yesterday, is at the Hadoop World conference in New York City today. At 4PM, Saptarshi will give a presentation on RHIPE, his link between R and Hadoop. Saptarashi was interviewed yesterday by Alex Handy of the SD Times, where he talked about his background and his motivation to create RHIPE. Saptarshi was sponsored by...

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In case you missed it: September Roundup

October 12, 2010
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In case you missed them, here are some articles from August of particular interest to R users. We presented a profile of Hadley Wickham, author of many popular R packages including ggplot2 and reshape. We riffed the design of the new Twitter website into a discussion on calculating the Golden Mean with R. Several readers contributed 1-liners based on...

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Example 8.9: Contrasts

October 12, 2010
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Example 8.9: Contrasts

In example 8.6 we showed how to change the reference category. This is the natural first thought analysts have when their primary comparisons aren't represented in the default output. But our interest might center on a number of comparisons which don...

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Export R data to tex code

October 12, 2010
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Export R data to tex code

We often use Gnu R to work on different things and to solve various exercises. It's always a disgusting job to export e.g. a matrix with probabilities to a LaTeX document to send it to our supervisors, but Rumpel just gave me a little hint.

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ClusterProfiles

October 12, 2010
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ClusterProfiles

It is very common to cluster genes based on their expression profiles, and also very common to integrate Gene Ontology to observe the distribution of biological processes, molecular functions and cellular components for a given gene list. But, what if the two in combination? The Gene Ontology distributions across a variety of gene clusters may give us a new...

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ClusterProfiles

October 12, 2010
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ClusterProfiles

It is very common to cluster genes based on their expression profiles, and also very common to integrate Gene Ontology to observe the distribution of biological processes, molecular functions and cellular components for a given gene list. But, what if the two in combination? The Gene Ontology distributions across a variety of gene clusters may give us a...

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Chicago Marathon 2010

October 11, 2010
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It's the Monday of the Columbus Day weekend here, so I must have been running a Chicago Marathon yesterday. Indeed -- the 34th annual Chicago Marathon took place yesterday but everything was about its 10/10/10 date. The symmetric set of numbers was i...

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