2023-02-05

Outline

Diagram

R Package for Workflow

SDMWorkflows

  • No current package has all the tools for our workflow
  • Cleaner way in one package
  • SDMWorkflows

Taxonomic resolver

Taxonomic resolver (Ready!)

  • Extract all taxons from arter.dk
  • Resolve Synonyms and other probelems within SDMWorkflows
  • Function Clean_Taxa, already tested
  • Being tested by ecogenetics
  • Started with 60,958 taxa, ended with 40,328 species

Climatic downscaling

Climtatic Downscaling

  • Based on Chelsa Downscaling to 10 mts
  • Repo with code ready
  • Need help with Python code (Zsofia, Ollie, Donjeta)
  • Quick and dirty alternative

Storage challenges

  • At least 4 scenarios
  • Monthly max, min temp and prec
  • 2000 to 2100
  • Generate bioclimatic variables but try to get drought indices
  • 4 Scenarios x 100 years x 12 months x 3 variables

14,400 rasters

Alternatives

Presence cleaning

Solved

  • Centroid detection
  • Spatial outlayers
  • Temporal outlayers

Our bottleneck (Spatial thinning)

  • Priorly working with the spThin package
  • It has now clear way of establishing thinning distance
  • Very slow for species with large numbers
  • Maximizes number of presences in rare species
  • Minimizing morans I for threshold
  • Faster algorithm for more common species
  • Limit maximum presences (1000?)

SDM

Maxent

  • Only one with presence only (no pseudoabsences)
  • Just try several settings and solve throuhg AICc or TSS
  • Store models

Projections

Data volume

  • 40,328 x 4 scenarios x 4 timesteps

645,248 rasters

  • For know Cloud Optimized Geotiffs