Class "fecObj"
Creates a Hossfeld function defining growth.
Combines growth and survival.
Functions to build survival objects
Convert size increment according to time elapsed between censuses.
Builds a compound P matrix.
Calculates net reproductive rate (R0) from an IPM.
Function to build offspring objects
~~ Methods for Function growthCum ~~
Function to make a Hossfeld Growth Object
Hypericum Perennial Dataset
~~ Methods for Function growth ~~
Makes pictures of data with growth models
Succisa pratensis Dataset
Estimates growth probabilities.
Models growth allowing for cumulative bin estimation.
Class "growthObjIncr"
Compares growth and survival objects built from different covariate sets.
Estimates passage time in a discretely varying environment.
predictFutureDistribution
Predicts continuous (e.g. size) stage distribution in the future giving current population's stage distribution.
Silwood Monocarp Dataset
Estimates survivorship between two time censuses.
stochGrowthRateSampleList
Estimating the stochastic population growth rate (lambda_s) or invasion rat.
Builds P and F matrices built off regressions fitted to discrete variables (with probability mass functions rather than probability density functions).
Class "IPMmatrix"
Class "growthObjHossfeld"
Cryptantha Perennial Dataset with Covariates
Defines passage time to a chosen continuous stage.
Estimates matrix element sensitivities and elasticities.
Makes pictures of survival.
Function to coerce growth or survival objects, i.e., impose user-defined
parameters
Plots compared models built with growthModelComp and survModelComp.
Builds F matrices.
Builds list of IPMs or P matrices from list growth, survival, fecundity and discreteTrans objects. It is helpful when building multiple IPMs for study of parameter uncertainty or stochastic dynamics.
Internal IPMpack objects.
Survival
Hypericum Perennial Dataset with covariates
Adds probability density functions of density function of size or increment given current size and growth to plots.
Function to build fecundity objects
Gets IPM output from a list of P matrices (only survival and size information) or full IPMs (P matrices + F matrices; the latter include sexual reproduction information).
Makes a list of IPMs where there is a discrete covariate.
Estimates variation in passage time.
Estimates size/stage to age relationships
Calculates variation in life expectancy in a discretely stochastic environment.
Builds a compound F matrix.
Builds matrix for transitions between discrete (e.g. seedbank, dormant) and continuous (e.g. size) stages, for situation where continuous variable is an integer (e.g. number of leaves).
Calculates the mean life expectancy.
Calculates growth objects reflecting distribution of parameters from lm or glm.
Implements a logistic transform.
Class "growthObj"
Function to build clonal reproduction objects
Builds P matrices.
Construction and analysis of integral projection models and associated measures of population growth, structure, perturbations (sensitivities and elasticities), overall population dynamics, age-specific metrics, etc.
Succisa pratensis Dataset
Class "growthObjLogIncr"
Calculates population growth rate (lambda) and stable stage distribution in a computationally efficient way when the number of bins in the IPM is large.
Builds C matrices.
Class "growthObjNegBin"
Function to build growth objects
~~ Methods for Function surv ~~
Projects how long it takes to get from a starting distribution to a target continuous stage value.
Builds a compound C matrix.
Estimates stochastic population growth rates (lambda_s) or invasion rate with many varying covariates. Alternatively, tracks population structure in a stochastic environment if trackStruct is TRUE.
Builds matrix for transitions between discrete (e.g. seedbank, dormant) and continuous (e.g. size) stages.
growthObjLogIncrDeclineVar-class
Class "growthObjLogIncrDeclineVar"
growthObjIncrDeclineVar-class
Class "growthObjIncrDeclineVar"
Fitting Hossfeld growth function.
Class "envMatrix"
discreteTransInteger-class
Class "discreteTransInteger"
Builds environmental transition objects.
Generates random data in the form used by IPMpack.
Estimates sensitivity and elasticity of lambda (or R0, or Life
expectancy of a chosen bin) to parameters underlying an IPM.
Show a text file containing package news and updates.
Class "fecObjInteger"
Creates a series of diagnostic graphs for a P matrix.
Class "growthObjPois"
Function to build fecundity objects
Builds IPM matrices.
Class "survObjOverDisp"
Generates random data in the form used by IPMpack based on the population dynamics of Carlina vulgaris
Class "survObj"
Iterates until obtaining the number of bins required so that the difference in the chosen measure (lambda, R0, life expectancy of a chosenBin) falls below a chosen tolerance level
Class "discreteTrans"
growthObjDeclineVar-class
Class "growthObjDeclineVar"
Class "growthObjTruncIncr"