Articles by Chris

Parsing GEO SOFT files with Python and Sqlite

July 17, 2009 | Chris

NCBI's GEO database of gene expression data is a great resource, but its records are very open ended. This lack of rigidity was perhaps necessary to accommodate the variety of measurement technologies, but makes getting data out a little tricky. But, a...
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R String processing

July 2, 2009 | Chris

Here's a little vignette of data munging using the regular expression facilities of R (aka the R-project for statistical computing). Let's say I have a vector of strings that looks like this:__ coords [1] "chromosome+:157470-158370" "chromosome+:1583...
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How to plot a graph in R

June 2, 2009 | Chris

Here's a quick tutorial on how to get a nice looking graph out of R (aka the R Project for Statistical Computing). Don't forget that help for any R command can be displayed by typing the question mark followed by the command. For example, to see help o...
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Results of the St. Pat’s 10 Miler and 5K

March 23, 2008 | Chris

Recently I ran the St. Pat’s 10 Miler in Atlantic City, Nj. It was my first official running event ever and I enjoyed it lot. Shortly after the race the official results have been posted on the Internet. The data did not only include the number and times of the ...
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