November 2009

Scivews-K got updated again

November 4, 2009 | Shige

With the recent update, I was able to get it working properly.Interestingly, while it works on my Vista 64-bit, it does not work on my Ubuntu 64-bit. I have no idea what is going on.
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R’s xtabs for total weighted read coverage

November 4, 2009 | Jeremy Leipzig

Samtools and its BioPerl wrapper Bio::DB:Sam prefer to give read coverage on a depth per base pair basis. This is typically an array of depths, one for every position that has at least one read aligned. OK, works for me. But how can we quickly see which targets (... [Read more...]

Split, apply, and combine in R using PLYR

November 4, 2009 | Stephen Turner

While flirting around with previously mentioned ggplot2 I came across an incredibly useful set of functions in the plyr package, made by Hadley Wickham, the same guy behind ggplot2.  If you've ever used MySQL before, think of "GROUP BY", but here you can arbitrarily apply any R function to splits ... [Read more...]

LondonR tomorrow night

November 2, 2009 | mikeksmith's posterous

LondonR Date: Tuesday 3rd November Time: 6pm – 9.30pm Venue: Shooting Star Public house, 129 City Rd London, EC1, United Kingdom +44 20 7929 6818 Introduction: Richard Pugh - mangosolutions 6.15pm: Richard Saldanha - R in the ... [Read more...]
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