Package index • lande

Prepare

Standardise the traits, relativise fitness and check the data

prepare_selection_data(): Prepare data for selection analysis
detect_family(): Automatically detect fitness type and GLM family
check_selection_assumptions(): Check the assumptions behind a selection analysis

Selection differentials, linear and quadratic gradients, their intervals and canonical axes

selection_differential(): Calculate selection differential (S)
selection_coefficients(): Calculate selection coefficients
analyze_linear_selection(): Analyze linear selection gradients (beta)
analyze_nonlinear_selection(): Analyze nonlinear selection gradients (gamma)
analyze_disruptive_selection(): Disruptive or stabilising selection on one trait
extract_linear_coefficients(): Extract linear selection coefficients
extract_quadratic_coefficients(): Extract quadratic selection coefficients
extract_interaction_coefficients(): Extract correlational selection coefficients
bootstrap_selection(): Bootstrap selection gradients
canonical_analysis(): Canonical analysis of the gamma matrix
plot_canonical_axes(): Fitness along the canonical axes
selection_report(): Standardised selection analysis report

Spline fitness functions for one trait and fitness surfaces for two

univariate_spline(): Estimate univariate correlated fitness function
plot_univariate_fitness(): Plot Univariate Correlated Fitness Function
correlated_fitness_surface(): Calculate the Correlated Fitness Surface
plot_correlated_fitness(): Plot Correlated Fitness Surface
plot_correlated_fitness_enhanced(): Plot Enhanced Correlated Fitness Surface
peak_difference(): Compare the fitted fitness at two points of a surface

Mean fitness against the population mean, and how it compares with the individual surface

adaptive_landscape(): Calculate Adaptive Landscape
plot_adaptive_landscape(): Plot Adaptive Landscape
plot_adaptive_landscape_3d(): Plot Adaptive Landscape (3D Perspective)
compare_fitness_surfaces_data(): Compare Correlated Fitness Surface vs Adaptive Landscape
plot_fitness_surfaces_comparison(): Plot Fitness Surfaces Comparison

One fitness function or surface per period

temporal_landscape(): Fitness functions and adaptive landscapes over time
plot_temporal_landscape(): Plot fitness functions and landscapes over time

The whole workflow in a browser

Example datasets included with lande

bumpus: Bumpus house sparrow survival data
crescent_pond_pupfish little_lake_pupfish: Pupfish hybrid survival in two San Salvador lakes
finch_yearly: Medium ground finch survival from year to year
finch_community: Darwin's finch community at El Garrapatero