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R Scripts — Community Ecology

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Community ecology

LTOM.01.002 — Data Analysis in Community Ecology · University of Tartu, 2023.

Course datasets — all data used across the 10 sessions.

Download and unzip before starting.

⬇ Download data.zip
Session 1
Introduction to R
Objects · data types · functions · data dimensions · loops
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Session 2
Data manipulation
Long format · data wrangling · loops in scripts
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Session 3
Data formatting
Long vs wide data · tidyr · reshape · joins
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Session 4
Species diversity
Species richness · alpha diversity · beta diversity · dark diversity
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Session 5
Community matrices
Species × site matrices · dissimilarity · distance metrics
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Session 6
Ordinations
Taxa as axes · PCA · CA · NMDS · RDA
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Session 7
Environmental gradients
Community–environment relationships · constrained ordinations
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Session 8
Functional ecology
Weighted means (CWM) · functional diversity indices · trait–environment links
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Session 9
Spatial ecology
Mantel tests · spatial autocorrelation · distance-decay
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Session 10
Data presentation
Colours · ggplot2 · publication-quality figures
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