Biodiversity

Assignment 1

Author

AJ Smit

Published

June 28, 2020

Submit a R script wherein you provide answers to Questions 1–9 by no later than 8:00 tomorrow. Label the script as follows: BCB743_<Name>_<Surname>_Assignment_1.R, e.g. BCB743_AJ_Smit_Assignment_1.R.

Refer to the Biodiversity lecture material for the question context.

Assignment 1 Questions

Question 1: Why is the matrix square, and what determines the number of rows/columns?

Question 2: What is the meaning of the diagonal?

Question 3: What is the meaning of the non-diagonal elements?

Question 4: Take the data in row 1 and create a line graph that shows these values as a function of section number.

Question 5: Provide a mechanistic (ecological) explanation for why this figure takes the shape that it does.

Question 6: Why is there a difference between the two?

Question 7: Which is correct?

Question 8: Plot species turnover as a function of Section number, and provide a mechanistic exaplanation for the pattern observed.

Question 9: Based on an assessment of literature on the topic, provide a discussion of nestedness-resultant β-diversity. Use either a marine or terrestrial example to explain this mode of structuring biodiversity.

Reuse

CC BY-NC-SA 4.0

Citation

BibTeX citation:

@online{smit,_a._j.2020,
  author = {Smit, A. J., and Smit, AJ},
  title = {Biodiversity},
  date = {2020-06-28},
  url = {http://tangledbank.netlify.app/slides/BCB743_02-biodiversity.html},
  langid = {en}
}

For attribution, please cite this work as:

Smit, A. J., Smit A (2020) Biodiversity. http://tangledbank.netlify.app/slides/BCB743_02-biodiversity.html.

---
title: "Biodiversity"
subtitle: "Assignment 1"  
author: 
  - "AJ Smit"
date: '2020/06/28 (updated: `r Sys.Date()`)'
output:
  xaringan::moon_reader:
    css:
      - default
      - "default-fonts.css"
      - ki
      - "uwc_logo.css"
    yolo: false
    self_contained: TRUE  
    lib_dir: libs
    nature:
      highlightStyle: idea
      highlightLines: true
      highlightLanguage: r
      countIncrementalSlides: false
      ratio: 16:9
---

```{r setup, include = FALSE, echo = FALSE} 
library(tidyverse)
library(ggpubr)
knitr::opts_chunk$set(echo = TRUE,
                      comment = "R>",
                      message = FALSE,
                      warning = FALSE,
                      include = TRUE,
                      fig.retina = 3,
                      fig.width = 6,
                      fig.height = 3.6,
                      fig.align = "center")
```

Submit a R script wherein you provide answers to Questions 1--9 by no later than 8:00 tomorrow. Label the script as follows: **`BCB743_<Name>_<Surname>_Assignment_1.R`**, e.g. **`BCB743_AJ_Smit_Assignment_1.R`**.

Refer to the [Biodiversity lecture material](https://ajsmit.netlify.app/workshops/quantecol/chapters/02-biodiversity/) for the question context.

---

### Assignment 1 Questions

> **Question 1:** Why is the matrix square, and what determines the number of rows/columns?
>
> **Question 2:** What is the meaning of the diagonal?
>
> **Question 3:** What is the meaning of the non-diagonal elements?
>
> **Question 4:** Take the data in row 1 and create a line graph that shows these values as a function of section number.
>
> **Question 5:** Provide a mechanistic (ecological) explanation for why this figure takes the shape that it does.

---

> **Question 6:** Why is there a difference between the two?
>
> **Question 7:** Which is correct?
>
> **Question 8:** Plot species turnover as a function of Section number, and provide a mechanistic exaplanation for the pattern observed.
>
> **Question 9:** Based on an assessment of literature on the topic, provide a discussion of nestedness-resultant β-diversity. Use either a marine or terrestrial example to explain this mode of structuring biodiversity.