I am Alexandre Courtiol, a quantitative wildlife biologist based at IZW Berlin.

For info on my research group, check out www.datazoogang.de

This page is motivated by the fact that most people using GitHub (including me) fail to organise their repositories using a coherent hierarchical system.

Instead all the repos lay at the root, forming a growing mess.

I have thus created this page as a guide to my GitHub den: it indicates what to find where.

I have also included a few repos to which I contributed and which are not stored under my personal GitHub account.

I did this for myself, but perhaps it can be useful for others too (if only as an inspiration).

• IsoriX & IsoriX_project: isoscape computation and inference of spatial origins using mixed models
• lay: a simple and efficient implementation of rowwise jobs
• timevarcorr: computes how the correlation between 2 time-series changes over time

• coronaR & excess_mortality_COVID19: workflow to monitor COVID progress (probably no longer working)
• dfuzz: to tidy columns of strings (experimental)
• hyenaR: to wrangle the data from the Ngorongoro Hyena Project (private)
• inferpref: to infer preferences from mating patterns (private)
• manyfold: to explore data by folding columns (experimental)
• packtrack: to monitor use of packages (experimental)

• accipiteR: for a paper about how Northern goshawks cope with the urban environment
• gallbladdeR: for a paper about the evolution of gallbladders (private)
• isoMM: for a paper in prep about isoscapes and mixed models (private)
• mallaRd: for a paper about the breeding behaviour of mallards in Berlin
• matingRhinos: for a paper about mate choice and mating success in white rhinos
• mammalianMI: for a paper about how to quantify maternal investment in mammals
• rangeRinPA & rangeRinPA_private: for a paper on the number of rangers working in natural protected areas
• SileR: for a paper about survivorship on Asian elephants
• twinR & twinR-private: for a paper about the relation between twinning rates and fertility in humans
• vullioud2018: for a paper on dominance in spotted hyenas
• winteR & winteR_old_private: for a paper on bat hibernation and climate change

Please refer to the original repos to know more about these packages.

• ABMR6: created pkg, co-developped
• adegenet: trivial, fixed broken example
• adRes: created pkg, co-developped
• asremlPlus: minor fix
• broom.mixed: WIP for adding support for spaMM
• camtrapR: helped setting things up
• DHARMa: minor fix
• distillery: avertised my website
• dplyr: minor fix
• inlabru: trivial, fixed namespace
• lattice: added generics
• pedigree & pedigreeCRAN: WIP allowing parallel computing
• rastervis: proposed new methods
• rethinking: trivial, fixed formating citations
• SHIM: co-developped (an individial based mode of the Ngorongoro hyena population; private)
• torpor: small improvements

Note that I also contributed to other packages not hosted by GitHub (e.g. spaMM).

• flipChoice: patch to unmaintained package
• miniCRAN: feature proposal not accepted
• pegas: feature proposal
• testenvrmarkdown: bug report

• choosiness: an individual based model to study choosiness built (old project with Robert Schwieger)
• mating_pattern: an algorithm to infer mating preferences (old project with Robert Schwieger)
• IUCN: an attempt to parse IUCN data (for a group project with students of the Freie University, Berlin)
• IsoriX_hexsticker: an attempt at creating an hexsticker for IsoriX (private fork)
• Vullioud_PhD: old material from Colin Vullioud

• introR (a fork)
• BeginR: a short introduction to R
• LM2GLMM: a course on GLMM
• R4Genetics: a short introduction to population genetics
• Rcourses: some courses on R
• Rguides: alternative cheat sheets for R
• RintroIZW: another short introduction to R

• factworks (private fork)
• r2factworks (private)

• awesome-ukraine-support: useful links for ukrainians (fork)
• courtiol: the repo to modify the page you are reading right now
• drat: to provide some R packages
• DZG_website: the website for my group (made with R)
• judsound: to build an alarm clock & music player with a raspberry pie
• todo: an attempt at creating a todo list for everything in life (private)