A new package called 'backbone' recently dropped on CRAN and I'm super stoked about it. Essentially, the package simplifies a co-occurrence matrix by extracting its 'backbone.' The package offers various methods for extracting a backbone, one of which involves the use of the hypergeometric ... READ the POST
Understanding probabilistic species co-occurrence
In this post, we're going to examine the probabilistic model as seen in Veech's A probabilistic model for analysing species co‐occurrence (2012). We'll start by defining the model before moving into calculating co-occurrence probabilities in R.
In ecology, co-occurrence networks can help us identify relationships between species using repeated measurements of the species' presence or absence. When evaluating potential relationships, we might ask: Given presence-absence data, are two species co-occurring at a frequency higher or lower than ... READ the POST
How to create co-occurrence networks with the R packages ‘cooccur’ and ‘visNetwork’
Co-occurrence networks are a graphical representation of how frequently variables appear together. They're commonly used in ecology and text mining, where co-occurrence measures how frequently two species are seen together within a sampling site or how frequently two words are present in a single ... READ the POST