Course pre-requisites can be found here. All the raw files and code can be found here. Click ‘Clone or Download’ near the top right and then ‘Download ZIP’ if you want an offline copy of everything.
As this module will be delivered online please install Zoom and Slack to access the videos and interactive components of the course. All the Zoom links to the meeting will be posted to the Slack #zoom-links channel.
Please note that the course will be recorded so that attendees in different time zones can catch up on material. All times are UTC+0.
Day 1
Introduction to SIA data and revision of basic statistical and R concepts
| Time | Class |
|---|---|
| 09:30-10:30 | Session 1 Introduction: why use a SIMM? (AJ & AP) |
| 10:30-10:45 | Coffee break |
| 10:45-11:45 | Session 2 Revision of likelihood and regression (AP) |
| 11:45-12:00 | Break |
| 12:00-13:00 | Session 3 Guided practical: Revision of important R concepts (AP) |
| 13:00-14:00 | Lunch |
| 14:00-15:00 | Session 4 Guided practical: Intro to SI data and biplots (AJ) |
| 15:00-15:30 | Coffee break |
| 15:30-17:00 | Session 5 Guided Practical: Simple linear models to explain SIA data (AJ) |
Day 2
Introduction to Bayes and SIMMs
| Time | Class |
|---|---|
| 09:30-10:30 | Session 6 An introduction to Bayesian statistics (AP) |
| 10:30-10:45 | Coffee break |
| 10:45-11:45 | Session 7 Guided practical: R, JAGS, and linear regression (AP) |
| 11:45-12:00 | Break |
| 12:00-13:00 | Session 8 Differences between regression models and SIMMs (AP) |
| 13:00-14:00 | Lunch |
| 14:00-15:00 | Session 9 Guided practical: intro to simmr (AP) |
| 15:00-15:30 | Coffee break |
| 15:30-17:00 | Session 10 Practical: options are (1) run your data through AJ’s plots from yesterday, or (2) get your data to run in simmr, or (3) go back and learn ggplot2 from this script |
Day 3
simmr / MixSIAR
| Time | Class |
|---|---|
| 09:30-10:30 | Session 11 The statistical model behind simmr (and SIAR) (AP) |
| 10:30-10:45 | Coffee break |
| 10:45-11:45 | Session 12 Guided Practical: using MixSIAR and incorporating prior information in simmr (AP) |
| 11:45-12:00 | Break |
| 12:00-13:00 | Session 13 Dos and don’ts of using mixing models with discussion (AJ) |
| 13:00-14:00 | Lunch |
| 14:00-15:00 | Session 14 Dos and don’ts continued (AJ) |
| 15:00-15:30 | Coffee break |
| 15:30-17:00 | Session 15 Practical: Source grouping, when and how? (AJ) |
Day 4
Source grouping, SIBER, and (new!) cosimmr
| Time | Class |
|---|---|
| 09:30-10:30 | Session 16 Creating and understanding Stable Isotope Bayesian Ellipses (SIBER) (AJ) |
| 10:30-10:45 | Coffee break |
| 10:45-11:45 | Session 17 Guided Practical: Using SIBER to compare populations using ellipses (AJ) |
| 11:45-12:00 | Break |
| 12:00-13:00 | Session 18 Guided Practical: Using SIBER to compare communities using convex hulls (AJ) |
| 13:00-14:00 | Lunch |
| 14:00-15:00 | Session 19 Introduction to cosimmr and practical (EG & AP) |
| 15:00-15:30 | Coffee break |
| 15:30-17:00 | Session 20 Practical: pick a MixSIAR example and look at the manual (AP & AJ) |