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Biological Sciences Honours 2024

GIS project lightning talks

Thursday, 22 Feb 2024

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Instructions

You get:

  • ONE slide
  • 2 Minutes to talk
  • 1 Minute for questions

I will present the slide deck from my machine so there’s no delay in transitions.

Please make your slide on your own and then paste it in here. (You need a backup in case someone does something silly to the slide deck…). If your slide is not compatible with Google Slides then save it as a picture and paste it in.

Don’t forget to include your name!

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Avoid thy neighbour: evidence for interspecific competition between Klipspringer (Oreotragus oreotragus) and Himalayan Tahr (Hemitragus jemlahicus) by Ben Wittenberg

Data:

  • iNaturalist observations

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R packages:

  • sf, rinat, leaflet, ggspatial, tidyverse, rosm, terra

Maps:

  • Open street Maps

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Workflow:

  • Import and refine iNat data for both species
  • Convert to spatial object and write to machine
  • Create interactive map
  • Buffer for home ranges and detect overlap
  • Detect altitude differences

Himalayan Tahr

Klipspringer (Oreotragus oreotragus)

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THE CHANGE IN DISTRIBUTION OF ALIEN ACACIA PLANTS (Acacia Saligna, Acacia Longifolia, Acacia Mearnsii) IN THE CAPE PENINSULA FROM 2014-2023 BASED ON iNaturalist DATA

Acacia Mearnsii

acacia_mearnsii_map_2014_2023_with_legend.html

Acacia Longifolia

acacia_longifolia_map_2014_2023_with_legend.html

Acacia Saligna

acacia_saligna_map_2014_2023_with_legend.html

DATA: iNaturalist data for each species by year.

R PACKAGES: rinat, tidyverse, sf, prettymapr, leaflet

MAP: Streetview base map with coordinates of observations coloured by 2-year groups for each species.

OUTPUT: View change in distribution of alien species.

Hannah Glanvill GLNHAN001

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Buzzing Under Threat: Assessing Habitat Loss Impact on Wild Honeybee Colonies in the Western Cape

Data

  • Biodiversity Spatial Plan - Ecosystem Threat Status 2016
    • Type: Shapefile
    • Source: CapeNature, SANBI
  • Open Street Maps
  • iNaturalist Observations: Cape Honeybee colonies
    • Type: Spatial point data
    • Source: iNaturalist

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Workflow

  1. Data Acquisition and Preparation
  2. Spatial Overlay
  3. Spatial Join
  4. Visualization
  5. Statistical Analyses
  6. Interpret and Report

R Packages:

  • ‘sf’, ‘sp’, ‘raster’, ‘leaflet’, ‘mapview’, ’ggspatial’

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By Robyn Fabian

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Investigating Indigofera hybrid swarm on Napier Mountain

by Ongezile

  • iNaturalist
  • Open street map
  • Macrostat

R packages

  • library(sf),

(sp), (leaflet), (raster)etc

1. Identify a question

3. Data source

4. GIS Workflow

3.1 Capturing data (in R)

3.2 Refining and tidying (in R)

  • Clean data
  • Determine CRS
  • Projection adjustment

3.3 Integrate data:

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  • Combine spatial and attribute data.

3.5 Visualization:

-Creating output map

2. Data required

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  • Spatial Data
  • Attribute Data

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3.4 Data analysis

-Spatial analysis

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Cultivated vs. wild distributions of common flowering fynbos species

Ashleigh Smith

iNaturalist observations for wild and cultivated:

  • L. salignum
  • L. conocarpodendron
  • E. cerinthoides

GIS workflow

Data wrangling in R Studio:

  • Filter out observations that were obscured
  • Identify points falsely labelled as wild

Map the observations per year in R:

  • Bin the date data into years
  • Create ggplot for each year using for loop

Billi Krochuk

https://www.inaturalist.org/photos/21773366

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ProteaAtlas Database, specifically locality of:

  • Leucadendron salignum
  • Aulax pallasia

(occ_sub.csv)

Fire Data from CapeNature. Archived CapeNature Fires - All 2020\21 [Vector]

GIS Processing in R:

  • Select Leucadendron and Aulax using appropriate Genus Code and extract spatial points (vector)
  • Read in fire data (raster)
  • Extract fire numbers and plot where fire number = 0
  • Using ggplot display the L & A points coloured by species
  • Create an interactive map with mapview
  • Export map into kml file; st_write(, driver = kml)

A map showing where L. salignum and A. palasia are found in an area that hasn’t burnt in the last 15+ years. The kml file can be used to find the specific species points in the field

Take Note:

  • When converting raster and vector data the Co-ordinate Reference System will be off - spTransform()
  • FIRMS data removes areas that touch the coast, be aware.

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pacman::p_load(sf, tidyverse, terra, raster, mapview)

Sarah Frances Visser

LOCATION OF RESPROUTING PROTEACEAE IN UNBURNT AREAS

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Thanks!!!