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lefko3 (version 6.2.0)

Historical and Ahistorical Population Projection Matrix Analysis

Description

Complete analytical environment for the construction and analysis of matrix population models and integral projection models. Includes the ability to construct historical matrices, which are 2d matrices comprising 3 consecutive times of demographic information. Estimates both raw and function-based forms of historical and standard ahistorical matrices. It also estimates function-based age-by-stage matrices and raw and function-based Leslie matrices.

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Version

Install

install.packages('lefko3')

Monthly Downloads

565

Version

6.2.0

License

GPL (>= 2)

Maintainer

Richard P. Shefferson

Last Published

January 28th, 2024

Functions in lefko3 (6.2.0)

Add a New Stage to an Existing LefkoMat Object

Create Raw Ahistorical Age x Stage Matrix Projection Model

Two-parameter Beverton-Holt function

Create Function-based Ahistorical Age x Stage Matrix Projection Model

Matrix Set of Anthyllis vulneraria Populations in Belgium

Extract Conditional Ahistorical Difference Matrices

Calculate Actual Stage, Age, Stage-Pair, or Age-Stage Distributions

Add Matrices to lefkoMat Object

Extract Conditional Ahistorical Matrices from Historical MPM

Append Projections Into New lefkoProj Object

Delete Matrices from lefkoMat Object

Demographic Dataset of Cypripedium candidum Population, in Horizontal Format

Edit an MPM based on Supplemental Data

Calculate Difference Matrices Between lefkoMat Objects of Equal Dimensions

Estimate Elasticity of Population Growth Rate to Matrix Elements

Creates a Skeleton Paramnames Object for Use in Function-based Modeling

Set Density Dependence Relationships in Matrix Elements

Create lefkoMat Object from Given Input Matrices or an MPM Database

Set Density Dependence Relationships in Vital Rates

Demographic Dataset of Cypripedium candidum Population, in Vertical Format

Project Function-based Matrix Projection Model

Check Quality and Distributions of hfv Datasets

elasticity3.list

Estimate Elasticity of Population Growth Rate of a List of Matrices

elasticity3.dgCMatrix

Estimate Elasticity of Population Growth Rate of a Single Sparse Matrix

Create Function-based Historical Matrix Projection Model

elasticity3.matrix

Estimate Elasticity of Population Growth Rate of a Single Matrix

elasticity3.lefkoMat

Estimate Elasticity of Population Growth Rate of a lefkoMat Object

Create Historical MPMs Assuming No Influence of Individual History

Create Function-based Age-based (Leslie) Matrix Projection Model

Create Function-based Ahistorical Matrix Projection Model

image3.dgCMatrix

Create a Matrix Image for a Single Sparse Matrix

image3.lefkoSens

Create Matrix Image(s) for lefkoSens Object

image3.lefkoElas

Create Matrix Image(s) for lefkoElas Object

Demographic Dataset of Lathyrus vernus Population

Create Historical Vertical Data Frame from Ahistorical Vertical Data Frame

Create a Matrix Image for a Single Matrix

Estimate Actual or Deterministic Population Growth Rate

image3.lefkoMat

Create Matrix Image(s) for lefkoMat Object

Create Matrix Images for Matrices in a List

Create Matrix Image

Two-parameter logistic function

Develop Best-fit Vital Rate Estimation Models for MPM Development

Create Overwrite Table for MPM Development

Historical and Ahistorical Population Projection Matrix Analysis

Arranges Matrix Elements in Order of Magnitude for Interpretation

Creates Vector of Times Based on First-Order Markov Transition Matrix

Estimate Mean Projection Matrices

Plot Projection Simulations

Conduct a Life Table Response Experiment

General Matrix Projection Model Creation

Estimate Reproductive Value

repvalue3.dgCMatrix

Estimate Reproductive Value Vector for a Single Population Projection Matrix

Estimate Reproductive Value Vector for a List of Projection Matrices

repvalue3.matrix

Estimate Reproductive Value Vector for a Single Population Projection Matrix

Create Raw Ahistorical Matrix Projection Model

Conduct Population Projection Simulations

Two-parameter Ricker function

repvalue3.lefkoMat

Estimate Reproductive Value Vectors of Matrices in a lefkoMat Object

Create Raw Historical Matrix Projection Model

Demographic Dataset of Pyrola japonica and Pyrola subaphylla Populations, in Horizontal Format

Estimate Sensitivity of Population Growth Rate to Matrix Elements

sensitivity3.dgCMatrix

Estimate Sensitivity of Population Growth Rate of a Single Matrix

Create Stageframe for Population Matrix Projection Analysis

sensitivity3.list

Estimate Sensitivity of Population Growth Rate of a List of Matrices

Estimate Stochastic Population Growth Rate

sensitivity3.matrix

Estimate Sensitivity of Population Growth Rate of a Single Matrix

Test Overdispersion and Zero Inflation in Size and Fecundity Distributions

sensitivity3.lefkoMat

Estimate Sensitivity of Population Growth Rate of a lefkoMat Object

Create Raw Leslie (Age-based) Matrix Projection Model

Create Skeleton Stageframe

summary.lefkoElas

Summarize lefkoElas Objects

Create a Starting Vector for Population Projection

Estimate Stable Stage Distribution

summary.lefkoCondMat

Summary of Class "lefkoCondMat"

stablestage3.list

Estimate Stable Stage Distribution of a List of Projection Matrices

stablestage3.dgCMatrix

Estimate Stable Stage Distribution of a Single Population Projection Matrix

summary.lefkoLTRE

Summarize lefkoLTRE Objects

Create New lefkoMat Object as Subset of Another lefkoMat Object

stablestage3.lefkoMat

Estimate Stable Stage Distribution of Matrices in lefkoMat Object

stablestage3.matrix

Estimate Stable Stage Distribution of a Single Population Projection Matrix

summary.lefkoMod

Summary of Class "lefkoMod"

Create a Data Frame of Supplemental Data for MPM Development

Import Vital Rate Model Factor Values for Function-based MPM Development

Create Historical Vertical Data Frame from Horizontal Data Frame

summary.lefkoMat

Summary of Class "lefkoMat"

summary.lefkoProj

Summarize lefkoProj Objects

Two-parameter Usher function

Summary of Class "hfvdata"