Articles by ibartomeus

Fun Data for teaching R

January 21, 2016 | ibartomeus

I’ll be running an R course soon and I am looking for fun (public) datasets to use in data manipulation and visualization. I would like to use a single dataset that has some easy variables for the first days, but … Continue reading → [Read more...]

Power analysis for mixed models

October 23, 2015 | ibartomeus

This is a quick note that may be useful for some people. I was interested in knowing how many years of monitoring we need to detect a trend. This is a long term monitoring project, so we already have 7 … Continue reading → [Read more...]

is_invasive( ) got a new best friend: is_native( )

May 7, 2015 | ibartomeus

A while ago I did a function to check if a species was among the worst invaders. I am really happy this function was used and ropensci put it in a package. However the function does not tell you if … Continue reading → [Read more...]

Getting the most of mix models with random slopes

January 21, 2015 | ibartomeus

I use mix models as a way to find general patterns integrating different levels of information (i.e. the random effects). Sometimes you only want to focus on the general effects, but others the variation among levels is also of interest. … Continue reading →

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Preferring a preference index

December 17, 2014 | ibartomeus

I’ve been reading about preference indexes lately, specifically for characterising pollinator preferences for plants, so here is what I learnt. Preference is defined as using an item (e.g. plant) more than expected given the item abundance. First I like to use … Continue reading →

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How to update and backup a MySQL database under version control and all within Rstudio

July 21, 2014 | ibartomeus

I am trying to have better workflows to ensure data quality and two important things for me are first, scripting as much as posible the data manipulation process, and second, backing up the database we use under version control (e.g. … Continue reading → [Read more...]

On Functional Diversity metrics

April 29, 2014 | ibartomeus

Summary: FD is getting very popular, so I figured that would be good to post not only the code (mostly borrowed) I am using: https://github.com/ibartomeus/fundiv, but also what I learnt of it. This posts assume you have read about FD calculation … Continue reading → [Read more...]

About Data

April 11, 2014 | ibartomeus

I recently did a workshop about data with PhD students. That was great to order my thoughts and put together a lot of good resources. All material used (with lots of links) is available in GitHub: https://github.com/ibartomeus/Data. Topics range from hardcore … Continue reading → [Read more...]

Quick and dirty notes on General Linear Mix Models

February 24, 2014 | ibartomeus

My datasets tend to have random factors. I try to stick to general models whenever I can to avoid dealing with both random factors and complex error distributions (not always possible). I am compiling some notes here to avoid visiting … Continue reading → [Read more...]

Science at the speed of ligth

October 15, 2013 | ibartomeus

May be is not going that fast, but at the speed of R at least. And R is pretty quick. This has pros and cons. I think that understanding the drawbacks is key to maximize the good things of speed, … Continue reading → [Read more...]

Software carpentry

August 11, 2013 | ibartomeus

I would never call myself a programmer, but as an ecologists I manage moderately big and complicated datasets, and that require to interact with my computer to get the most of them. I self-taught most of the things I need … Continue reading → [Read more...]

Happy biRthday

April 9, 2013 | ibartomeus

Today is my birthday. It’s also the birthday of a close friend. What an incredible coincidence! Or wait, may be is just expected. One more time R comes into our help, because it has a built-in function to answer our question. … Continue reading → [Read more...]

Pollination effectiveness landscape

February 28, 2013 | ibartomeus

I want to show you a pollination landscape, but this is not a pollinator landscape with flowers and nesting sites, but a plot showing two components of pollination. Quantity and quality. A recent paper by Pedro Jordano (see here for other … Continue reading → [Read more...]

Who are the pollinators? (with R plot)

December 17, 2012 | ibartomeus

I’ve been dreaming on writing a manuscript about who are the pollinators for a while, but it looks I’m not going to have the time soon, so here is an early draft of what the main figure should look like: It’s surprisingly … Continue reading → [Read more...]

is.invasive( )

November 26, 2012 | ibartomeus

Celebrating that I am contributing to the R-bloggers.com blog aggregator I am going to post a very simple function to check which species (both plants and animals) are considered “invaders” somewhere in the world. Basically the function asks that to … Continue reading → [Read more...]

Running motivation #An R amusement

October 5, 2012 | ibartomeus

Henry John-Alder told me once that in a marathon, twice as runners cross the line at 2h 59m than at 3h 00m. He pointed out that this anomaly in the distribution of finishers per minute (roughly normal shaped) is due … Continue reading → [Read more...]

Articles by ibartomeus

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