## Warning: package 'knitr' was built under R version 3.2.5The course provides an introduction to the mathematical theory behind tuned virtual population analysis, the calculation of biological reference points, and projecting the abundance of the stock for a range of scenarios, e.g. for different catch quotas and model assumptions.
Participants will operate in teams in a workshop environment similar to an actual bluefin tuna stock assessment where they will prepare for the 2017 assessment by conducting their own analyses using the VPA-2BOX and PRO-2BOX software, and prepare a summary of the proposed management advice. Techniques for modeling two intermixing stocks will also be discussed as time permits.
Excercises will be conducted in both Excel and R
To
VPA and the assumptions behind are introduced and explained, focusing on
Example are based on the last bluefin assessment
Members of the ICCAT Species Group
All timings are approximate
[For Day 3 am and Day 4 pm someone with experience of VPA2box will lead i.e. showing how to modify the files to run retrospectives and implement new scenarios.]
| Day 1 | |
|---|---|
| AM Clay Porch | |
| 09:30 – 10:15 | Lecture: Population dynamics, Baranov catch equation |
| 10:15 – 11:00 | Lecture: Theory of VPA |
| 11:00 – 11:15 | Tea Break: |
| 11:15 – 12:15 | Exercise: VPA in excel |
| 12:15 – 13:15 | Lunch: |
| PM | Clay Porch |
| 13:15 – 14:30 | Presentation: Separable VPA and SCA |
| 14:30 – 15:30 | Exercise: SVPA and SCA in excel |
| 15:30 – 15:45 | Tea Break: |
| 15:45 – 16:30 | Presentation: VPA-2box |
| 16:30 – 17:00 | Exercise: Input files and running VPA-2box |
| Day 2 | |
|---|---|
| AM Clay Porch | |
| 09:00 – 09:45 | Lecture: Reference points and projections |
| 09:45 – 11:00 | Exercise: Projections from VPA in excel |
| 11:00 – 11:15 | Tea Break: |
| 11:15 – 12:00 | Lecture: Pro-2box |
| 12:00 – 12:15 | Exercise: Input files and running PRO-2box |
| 12:15 – 13:15 | Lunch: |
| PM Laurence Kell | |
| 13:30 – 14:15 | Presentation: Management Advice |
| 14:15 – 15:00 | Exercise: The kobe R package |
| 15:00 – 15:15 | Tea Break: |
| 15:15 – 16:00 | Presentation: Uncertainty |
| 16:00 – 17:00 | Reflection on the Day: |
| Day 3 | |
|---|---|
| AM ? | |
| 09:00 – 09:45 | Presentation: Retrospective Analyses |
| 09:45 – 11:00 | Exercise: VPA2Box |
| 11:00 – 11:15 | Tea Break: |
| 11:15 – 12:15 | Exercise: The Jackknife in R (LK) |
| 12:15 – 13:30 | Lunch: |
| PM | Laurence Kell |
| 13:15 – 14:00 | Presentation: Introduction to R |
| 14:00 – 15:15 | Presentation: ICCAT datasets |
| 15:15 – 15:30 | Tea Break: |
| 15:30 – 16:00 | Exercise: Exploratory Data Analysis |
| 16:00 – 17:00 | Reflection on the Day: |
| Day 4 | |
|---|---|
| AM Laurence Kell | |
| 09:30 – 10:15 | Presentation: Diagnostics |
| 10:15 – 10:45 | Exercise: The diags R package |
| 10:45 – 11:00 | Tea Break: |
| 11:00 – 12:15 | Exercise: Bootstrapping using VPA2Box |
| 12:15 – 13:15 | Lunch: |
| PM ? | |
| 13:15 – 14:00 | Presentation: Scenarios |
| 14:00 – 15:00 | Exercise: Running Scenarios |
| 15:00 – 15:15 | Tea Break: |
| 15:15 – 16:00 | Exercise: Continued |
| 16:00 – 17:00 | Reflection on the Day: |
| Day 5 | |
|---|---|
| AM Clay Porch | |
| 09:30 – 10:15 | Presentation: Preparing the 2017 stock assessment |
| 10:15 – 10:45 | Exercise: Main changes planned for the 2017 |
| 10:45 – 11:00 | Tea Break: |
| 16:00 – 17:00 | Planning for the Assessment: |
| 12:15 – 13:15 | Alligator Lunch: |