Monthly Archives: February 2013

the BUGS Book [guest post]

February 24, 2013
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the BUGS Book [guest post]

(My colleague Jean-Louis Fouley, now at I3M, Montpellier, kindly agreed to write a review on the BUGS book for CHANCE. Here is the review, en avant-première! Watch out, it is fairly long and exhaustive! References will be available in the published version. The additions of book covers with BUGS in the title and of the corresponding

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Dynamic community occupancy modeling with R and JAGS

February 24, 2013
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Dynamic community occupancy modeling with R and JAGS

This post is intended to provide a simple example of how to construct and make inferences on a multi-species multi-year occupancy model using R, JAGS, and the ‘rjags’ package. This is not intended to be a standalone tutorial on dynamic community occupancy modeling. Useful primary literature references include MacKenzie et al. (2002), Kery and Royle (2007), Royle and Kery...

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Workflow w/ reports package

February 24, 2013
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Workflow w/ reports package

NOTE: THIS IS NOW A PACKAGE SEE THIS LINK FOR DETAILS Let me start with a video for people who just want to see what I’m demo-ing first: I’ve been interested in speeding up workflow lately and spending a lot … Continue reading →

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Simple Count Probability

February 24, 2013
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Simple Count Probability

Data can take the form of counts: Compliments or complaints received Items returned Number of E. coli cases Data can also be expressed in rates: Percent of web traffic from a user permissions type Percent of businesses in a region passing a safety audit A random variable X has the Poisson distribution with parameter lambda

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Major update to the R-package geomorph

February 24, 2013
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Hi Folks,We have just completed a major update to the R-package geomorph:software for geometric morphometric analyses in R.  Included are several new functions to  carry out additional GM analyses, as well as enhancements of existing function...

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Copying Data from Excel to R and Back

February 24, 2013
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Copying Data from Excel to R and Back

A lot of times we are given a data set in Excel format and we want to run a quick analysis using R's functionality to look at advanced statistics or make better visualizations. There are packages for importing/exporting data from/to Excel, but I have f...

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Large correlation in parallel

February 24, 2013
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Large correlation in parallel

A little improvement to the bigcor function proposed on Rmazing to compute huge correlation matrix in R, I made the function work in parallel using all the CPU cores available on the machine. The code is here.Here is a benchmark of the 2 func...

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The Wisdom of Crowds – Clustering Using Evidence Accumulation Clustering (EAC)

February 24, 2013
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The Wisdom of Crowds – Clustering Using Evidence Accumulation Clustering (EAC)

Today’s blog post is about a problem known by most of the people using cluster algorithms on datasets without given true labels (unsupervised learning). The challenge here is the “freedom of choice” over a broad range of different cluster algorithms and how to determine the right parameter values. The difficulty is the following: Every clustering algorithm and even...

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Earthquakes in Netherlands

February 24, 2013
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Earthquakes in Netherlands

In the Netherlands we have Natural Gas. Unfortunately winning this gas seems to cause some quakes. As quakes go, they are not strong. However, our buildings are not made to resist quakes, before 1986 they were unheard of, so there is some damage. It is now predicted they could get stronger and more frequent. This caused a bit of a...

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Simplify your R workflow with functions #rstats

February 24, 2013
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Simplify your R workflow with functions #rstats

Update/ Thanks to Bernd I could improve the function of how to import the data, so here’s the updated script! /Update In R, you often may have scripts or code snippets that will be reused. In such cases, you can … Weiterlesen →

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