ONLINE COURSE – Multivariate analysis of ecological communities in R with the VEGAN package (VGNR04) This course will be delivered live
12th September 2022 - 16th September 2022£480
This course will now be delivered live by video link in light of travel restrictions due to the COVID-19 (Coronavirus) outbreak.
This is a ‘LIVE COURSE’ – the instructor will be delivering lectures and coaching attendees through the accompanying computer practical’s via video link, a good internet connection is essential.
TIME ZONE – UTC+2 – however all sessions will be recorded and made available allowing attendees from different time zones to follow a day behind with an additional 1/2 days support after the official course finish date (please email firstname.lastname@example.org for full details or to discuss how we can accommodate you).
Please feel free to email email@example.com with any questions, full course detaIls below.
This 5-day course will cover R concepts, methods, and tools that can be used to analyze community ecology data. The course will review data processing techniques relevant to multivariate data sets. We will cover diversity indices, distance measures and distance-based multivariate methods, clus-tering, classification and ordination techniques using the R package VEGAN. We will use real-world empirical data sets to motivate analyses, such as describing patterns along gradients of environ-mental or anthropogenic disturbances, quantifying the effects of continuous and discrete predictors. We will emphasize visualization and reproducible workflows as well as good programming practices. The modules will consist of introductory lectures, guided computer coding, and participant exer-cises. The course is intended for intermediate users of R who are interested in community ecology, particularly in the areas of terrestrial and wetland ecology, microbial ecology, and natural resource management. You are strongly encouraged to use your own data sets (they should be clean and already structured, see the document: “recommendation if you participate with your data”.
Any researchers (PhD and MSc students, post-docs, primary investigators) and environmental professionals who are interested in implementing best practices and state-of-the-art methods for modelling species’ distributions or ecological niches, with applications to biogeography, spatial ecology, biodiversity conservation and relateddisciplines.
Venue – Delivered remotely
Time zone – GMT
Availability – 20 places
Duration – 5 days
Contact hours – Approx. 35 hours
ECT’s – Equal to 3 ECT’s
Language – English
PLEASE READ – CANCELLATION POLICY: Cancellations are accepted up to 28 days before the course start date subject to a 25% cancellation fee. Cancellations later than this may be considered, contact firstname.lastname@example.org. Failure to attend will result in the full cost of the course being charged. In the unfortunate event that a course is cancelled due to unforeseen circumstances a full refund of the course fees will be credited.
Dr. Antoine Becker-Scarpitta
Works at – University of Helsink
Teaches – Multivariate analysis of ecological communities in R with the VEGAN package (VGNR03)
Antoine is a plant community ecologist working as a postdoctoral researcher at the University of Helsinki and as a postdoctoral fellow at the Institute of Botany of the Academy of the Czech Republic. Antoine holds a degree in Conservation Biology from the University of Paris-Sud-Orsay, and from the Natural History Museum of Paris, he obtained his PhD in Biology/Ecology from the University of Sherbrooke (Canada). Antoine’s research focuses on the temporal dynamics of biodiversity with a particular focus on the forest and Arctic vegetation. Antoine has taught community ecology, plant ecology and evolution, linear and multivariate statistics assisted on R.
The course will be divided into theoretical lectures to introduce and explain key concepts and theories, and practices with workshop sessions on R. ~2 modules per day, each module consists of ~1h30/2h lecture + coding, break, ~1h30/2h exercises + summary/discussion. The schedule can be slightly modified according to the interest of the participants. The course will take place online. All the sessions will be video recorded and made available immediately on a private video hosting
website as soon as possible after each 2hr session.
Assumed quantitative knowledge
Assumed computer background
Equipment and software requirements
Attendees will need to install/update R/RStudio and various additional R packages.
This can be done on Macs, Windows, and Linux.
R – https://cran.r-project.org/
RStudio – https://www.rstudio.com/products/rstudio/download/
UNSURE ABOUT SUITABLILITY THEN PLEASE ASK email@example.com
• Module 1: Introduction to community data analysis, basics of programming in R
• Module 2: Diversity analysis, species-abundance distributions
• Module 3: Distance and transformation measures
• Module 4: Clustering and classification analysis
• Module 5: Unconstrained ordinations: Principal Component Analysis
• Module 6: Other unconstrained ordinations
• Module 7: Constrained ordinations: RDA and other canonical analysis
• Module 8: Statistical tests for multivariate data and variation partitioning
• Module 9: Overview of Spatial analysis, and recent Hierarchical Modeling of Species Communities (HMSC) methods
• Modules 10: Special topics and discussion, analyzing participants’ data.