Monthly Archives: October 2010

Add an animated R plot to your LaTeX document

October 10, 2010
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Add an animated R plot to your LaTeX document

My first introduction with LaTeX was not very pleasant. I got tired and frustrated by writing so many codes for producing a simple document; but a few days ago I could write a function for producing an animated plot in R and also could export it to my LaTeX document with all its animations intact (using animation package of...

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dcemriS4 0.34

October 9, 2010
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The R package dcemriS4 is a collection of functions, with examples and documentation, that allows one to perform voxel-wise quantitative analysis of dynamic contrast-enhanced MRI (DCE-MRI) or diffusion-weighted imaging (DWI) data.  The primary app...

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oro.nifti 0.2.1

October 9, 2010
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The R package oro.nifti contains functions for the input/output and visualization of medical imaging data that follow either the ANALYZE or NIfTI formats.  This package is part of the Rigorous Analytics bundle.The latest version of oro.nifti (0....

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oro.dicom 0.2.7

October 9, 2010
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The R package oro.dicom contains functions for the input/output of medical imaging data that conform to the Digital Imaging and Communications in Medicine (DICOM) standard.  This package is part of the Rigorous Analytics bundle. The latest version...

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A competition to recommend “relevant” R packages – and the future of R

October 9, 2010
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Update: the competition was just launched. * * * What is the competition about? Drew Conway and John Myles Whyte have collected data from (52) R users about the packages they have installed. The data is now available on github for download and the contest will be run on the kaggle platform. For more details,

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Mapping BioStar users onto the world map

October 9, 2010
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Mapping BioStar users onto the world map

Neil is my new bioinformatics hero! (Sorry Pierre :)BioStar is a Q&A website for bioinformatics, just like the Blue Obelisk eXchange. Neil and Pierre have an ongoing struggle to gain the most karma, requiring Pierre to put in a formal complaint aga...

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BioStar users (of the world, unite)

October 9, 2010
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BioStar users (of the world, unite)

Egon writes: Can someone please plot the BioStar users on a Google Map? Sounds like a challenge. Let’s go. 1. Harvesting user IP addresses BioStar user profiles (here’s mine) include a location field. It’s free text and optional, which means that location is missing or inaccurate for many users. However, if you’re logged into BioStar

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Nightlights II

October 8, 2010
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Nightlights II

I’ve modified some routines so that we are always grabbing a roughly equal area regardless of the latitude. Basically, you do this: getLonScaleFactor <- function(lat){ kmAtEq <-111.3195 kmAtLat <- 111.41288*cos(lat*DEGREES.TO.RADIANS)-.09350*cos(3*lat*DEGREES.TO.RADIANS)+0.00012*cos(5*lat*DEGREES.TO.RADIANS) return(kmAtEq/kmAtLat) } # the above function returns a scale factor for km per degree @ a given latitude getExtent <-function(x,halfLength=.5,LonLat) { lonAdjust<-getLonScaleFactor(LonLat)*halfLength yMin <- max(ymin(x),LonLat

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Creating structured and flexible models: some open problems

October 8, 2010
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Prof. Andrew Gelman, from both the Statistics and Political Science departements at Columbia presented this talk to the New York R Statistical Programming Meetup on October 7, 2010. Description: A challenge in statistics is to construct models that ar...

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A competition to predict popular R packages

October 8, 2010
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A competition to predict popular R packages

What makes an R package popular? The number of people that use a given R package is a common point of discussion, but it turns out that it's kind of tricky to get hard and fast data to answer this question. You can look at the "I use this" number on crantastic.org, but that's a self-reported number (many more...

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