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Diversity.Jost

Lou Jost's diversity measures are found in the Diversity.Jost submodule.

Usage

Accessing the main functionality in the package is simple:

julia> using Diversity.Jost

julia> ecosystem = [2 2 0; 0 2 2]';

julia> ecosystem = ecosystem ./ sum(ecosystem);

julia> diversities = jostbeta(ecosystem, [0, 1, 2])
3×8 DataFrame
 Row │ div_type  measure   q      type_level  type_name  partition_level  partition_name  diversity 
     │ String    String    Int64  String      String     String           String          Float64   
─────┼──────────────────────────────────────────────────────────────────────────────────────────────
   1 │ Unique    JostBeta      0  types                  metacommunity                      1.5
   2 │ Unique    JostBeta      1  types                  metacommunity                      1.41421
   3 │ Unique    JostBeta      2  types                  metacommunity                      1.33333
Diversity.Jost.jostalpha — Method
jostalpha(proportions::AbstractMatrix, qs)

Calculates Jost's alpha diversity of a series of columns representing independent community counts, for a series of orders, repesented as a vector of qs. This is just the naive-community ecosystem diversity divided by the naive-community beta diversity.

Arguments:

  • proportions relative proportions of different individuals / species in population (vector, or matrix where columns are for individual sub-communities)

  • qs single number or vector of orders of diversity measurement

Returns:

  • DataFrame of diversities
source
Diversity.Jost.jostbeta — Method
jostbeta(proportions::AbstractMatrix, qs)

Calculates Jost's beta diversity of a series of columns representing independent community counts, for a series of orders, repesented as a vector of qs. This is just the naive gamma diversity divided by Jost's alpha diversity

Arguments:

  • proportions relative proportions of different individuals / species in population (vector, or matrix where columns are for individual sub-communities)

  • qs single number or vector of orders of diversity measurement

Returns:

  • DataFrame of diversities
source