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courtiol/README.md

Alex's GitHub Den

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).

R packages maintained by me released on CRAN

  • IsoriX: 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

R packages maintained by me but not released on CRAN

  • 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)

R packages or alternative material reproducing analyses/results of some of my scientific papers

  • 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
  • predictMM: for a paper in prep on the topic of point predictions in linear models (private)
  • rangeRinPA & rangeRinPA_private: for a paper on the number of rangers working in natural protected areas
  • seeadleR_private: for an upcoming paper on the changes in distribution of White-tailed Sea Eagles in Germany
  • 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

R packages maintained by others to which I contributed

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

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

Debugging material for reporting or fixing issues, or drafting new features

Experimental largely unfinished projects that are not R packages

  • 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

Teaching material

Consulting work

Miscellaneous

  • 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)

Pinned Loading

  1. data-zoo-gang/DZG_website data-zoo-gang/DZG_website Public

    Repository for the Data Zoo Gang's website

    TeX

  2. Rguides Rguides Public

    Alternative cheat sheets for R

    53 8

  3. IsoriX IsoriX Public

    This is the GitHub repository dedicated to the development of the R package IsoriX

    R 14 6

  4. timevarcorr timevarcorr Public

    An R package to compute time-varying correlations

    R 1

  5. lay lay Public

    An R package for a simple and efficient implementation of rowwise jobs

    R 18

  6. data-zoo-gang/ABMR6 data-zoo-gang/ABMR6 Public

    How to do individual-based simulations using R6

    R 6 2