Introduction to maximum likelihood and Bayesian statistics for ecologists (1-3 March 2017, iDiv)

By | February 27, 2017

The course is full. Here is syllabus with instructions. Complete raw codes (Markdown and R) and materials see the course's GitHub repository. DAY 1 Introduction: Course contents, pros and cons of Bayes, necessary skills. Normal distribution: Introducing likelihood on the Normal example. Poisson distribution: Likelihood maximization. Probability mass function. AIC and deviance. The Bayesian way… Read More »

Science is better than facts

By | February 23, 2017

Facts have recently been all over the place. With the Trump thing and the political arguments about climate change, evolution, inauguration crowd sizes, and funding of science, perhaps it is the time to have a closer look at what facts are (see also this post). My take: Science rarely works with facts. Surprisingly, the term… Read More »

IBS 2017: Weak case for experimental macroecology, dynamic macroecology on the rise, and the problem of process vs mechanism

By | January 17, 2017

I’ve returned from IBS meeting in Tucson. Here are my thoughts on experimental and dynamic macroecology, the two big issues discussed this year: Experimental macroecology needs better justification One entire morning was dedicated to experimental macroecology. Presented were results from small-grain manipulative experiments, sometimes replicated over large extents, sometimes not. However, it all felt like a… Read More »

Reproducible art with R

By | July 27, 2016

This is my tribute to the fantastic R package spatstat. All the artwork was 100% done in R, the source code is here. Click the images for hi-res (6000 x 4000) versions. License: This is a public domain work. Feel free to do absolutely whatever you want with the code or the images, there are… Read More »

Logarithmic axes with linear gridlines in basic R plots

By | July 18, 2016

I like Mathematica’s and Matlab’s log-log plots with logarithmic axes and linear tickmarks (and gridlines). In a way, they enable to imagine both multiplication and addition in a single figure. They also enable to more exactly visually connect data points with values. I haven’t found a simple ‘one-liner’ that’d do such plots in R. In… Read More »

Is natural history more fundamental than statistics?

By | March 11, 2016

A couple of weeks ago at iDiv I had an exchange with Jonathan Chase about the importance of natural history, and whether it is more fundamental than statistics. Jon was arguing for fundamental importance of natural history, I disagreed. To quote Jon quoting Evelyn Hutchinson: A quote Hutchinson wrote in 1975 about the importance of… Read More »

Light diversity: obscuring the observed species

By | October 2, 2015

Yesterday during an iDiv seminar we stumbled across dark diversity. For those unfamiliar with the concept, it has been defined by Pärtel et al. (2011) : It is possible to specify species that belong to a particular species pool but that are not locally present. We call this unaccounted set of species ‘dark diversity’. So… Read More »

What did Novak Djokovic really smell?

By | August 17, 2015

As reported by BBC, men’s tennis World number one Novak Djokovic complained to the umpire that he could smell cannabis on court during his Rogers Cup win over Jeremy Chardy. After winning the first set, the Serb approached the chair, saying: “Someone is smoking weed, I can smell it, I’m getting dizzy.” And later: “You… Read More »

Math vs. language, extinctions vs. climate change

By | June 1, 2015

Two unrelated insights that I’ve recently had: Math isn’t more abstract than language, it’s just exact The reason is that mathematical notation is part of the same language that we speak, and any mathematical formula is, in fact, a written (or spoken) sentence. Example: Which is equivalent to: The value of function F at x… Read More »