Short Course: Utilizing R with Dr. Patrick Gauthier

Patrick’s research explores neurobehavioural and physiological effects of contaminants in aquatic organisms, with a focus on metals, PAHs, pharmaceuticals, and their mixtures. Patrick develops and applies novel approaches for assessing the effects of chemical mixtures on aquatic life, which requires innovative data analysis for non-traditional data (i.e., nonlinear, multivariate, omics), with the ultimate goal of providing practical models of toxicity that are accessible to academics, industry, and regulatory agencies.

Patrick has expertise in statistical analyses and he is highly proficient in the open-source statistical package, R. This skillset has been a cornerstone to his academic success, as it has allowed him to creatively and adaptively mold existing and novel methods of data analysis to assess complex datasets involving mixtures, non-linear behavioural data, and large metabolomics datasets. Statistics is a universal language of the sciences, and Patrick’s fluency with R has provided him with a powerful multidisciplinary tool that that has served excellently in partnerships with colleagues with different research focuses.

Find the Short Course files here:

Explanation of files for SETAC PNC 2019 Short Course



data -- contains all data

Part 1 - Data Analysis -- contains all scripts for the morning session

Part 2 - Data Visualization -- contains all scripts for the afternoon session



Packages.R -- a list of all packages required for the course - can be ran in R to install all the packages needed for the course

ColorChart.pdf -- A comprehensive, but not complete, list of all colors available to R for plotting

Short.Course.Intro.pdf - Slides for the introduction to R 

R.Workshop.Schedule.pdf - Overview of scheduling and material for the course

symbols.png - a list of common symbols used for plotting in R

NMDS.tiff - example plot we will produce

Plasma.tIff - example plot we will produce

ToothGrowth.tIff - example plot we will produce