Integral Projection Models

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Documentation for package ‘ipmr’ version 0.0.7

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A C D F G I K L M N P R S T U V misc

-- A --

as.matrix.ipmr_ipm Convert to bare matrices
as.matrix.ipmr_matrix Convert to bare matrices

-- C --

collapse_pop_state Extract threshold based population size information
conv_plot Check for model convergence to asymptotic dynamics
conv_plot.ipmr_ipm Check for model convergence to asymptotic dynamics

-- D --

define_domains Helpers for IPM construction
define_env_state Helpers for IPM construction
define_impl Helpers for IPM construction
define_kernel Functions to initialize and define IPM kernels
define_pop_state Helpers for IPM construction
discrete_extrema Eviction correction
discretize_pop_vector Helpers for IPM construction
domains Accessor functions for (proto_)ipm objects
domains.default Accessor functions for (proto_)ipm objects
domains.proto_ipm Accessor functions for (proto_)ipm objects

-- F --

format_mega_kernel Create iteration kernels from an IPM object
format_mega_kernel.age_x_size_ipm Create iteration kernels from an IPM object
format_mega_kernel.default Create iteration kernels from an IPM object

-- G --

gen_di_det_ex A general deterministic IPM example

-- I --

iceplant_ex Raw demographic data to construct an example IPM
init_ipm Initialize an IPM
int_mesh Accessor functions for (proto_)ipm objects
int_mesh.ipmr_ipm Accessor functions for (proto_)ipm objects
ipm_to_df Convert ipmr matrix to long data frame
ipm_to_df.array Convert ipmr matrix to long data frame
ipm_to_df.default Convert ipmr matrix to long data frame
is_conv_to_asymptotic Check for model convergence to asymptotic dynamics
is_conv_to_asymptotic.ipmr_ipm Check for model convergence to asymptotic dynamics

-- K --

kernel_formulae Accessor functions for (proto_)ipm objects
kernel_formulae.default Accessor functions for (proto_)ipm objects
kernel_formulae.proto_ipm Accessor functions for (proto_)ipm objects
kernel_formulae<- Accessor functions for (proto_)ipm objects
kernel_formulae<-.proto_ipm Accessor functions for (proto_)ipm objects

-- L --

lambda Compute the per-capita growth rate for an IPM object
lambda.general_dd_det_ipm Compute the per-capita growth rate for an IPM object
lambda.general_dd_stoch_kern_ipm Compute the per-capita growth rate for an IPM object
lambda.general_dd_stoch_param_ipm Compute the per-capita growth rate for an IPM object
lambda.general_di_det_ipm Compute the per-capita growth rate for an IPM object
lambda.general_di_stoch_kern_ipm Compute the per-capita growth rate for an IPM object
lambda.general_di_stoch_param_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_dd_det_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_dd_stoch_kern_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_dd_stoch_param_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_di_det_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_di_stoch_kern_ipm Compute the per-capita growth rate for an IPM object
lambda.simple_di_stoch_param_ipm Compute the per-capita growth rate for an IPM object
left_ev Compute the standardized left and right eigenvectors via iteration
left_ev.general_di_det_ipm Compute the standardized left and right eigenvectors via iteration
left_ev.general_di_stoch_kern_ipm Compute the standardized left and right eigenvectors via iteration
left_ev.general_di_stoch_param_ipm Compute the standardized left and right eigenvectors via iteration
left_ev.simple_di_det_ipm Compute the standardized left and right eigenvectors via iteration
left_ev.simple_di_stoch_kern_ipm Compute the standardized left and right eigenvectors via iteration
left_ev.simple_di_stoch_param_ipm Compute the standardized left and right eigenvectors via iteration
left_mult Right/left multiplication

-- M --

make_impl_args_list Helpers for IPM construction
make_ipm Methods to implement an IPM
make_ipm.general_dd_det Methods to implement an IPM
make_ipm.general_dd_stoch_kern Methods to implement an IPM
make_ipm.general_dd_stoch_param Methods to implement an IPM
make_ipm.general_di_det Methods to implement an IPM
make_ipm.general_di_stoch_kern Methods to implement an IPM
make_ipm.general_di_stoch_param Methods to implement an IPM
make_ipm.simple_dd_det Methods to implement an IPM
make_ipm.simple_dd_stoch_kern Methods to implement an IPM
make_ipm.simple_dd_stoch_param Methods to implement an IPM
make_ipm.simple_di_det Methods to implement an IPM
make_ipm.simple_di_stoch_kern Methods to implement an IPM
make_ipm.simple_di_stoch_param Methods to implement an IPM
make_ipm_report Generate an RMarkdown file with IPM metadata
make_ipm_report.default Generate an RMarkdown file with IPM metadata
make_ipm_report.ipmr_ipm Generate an RMarkdown file with IPM metadata
make_ipm_report_body Generate an RMarkdown file with IPM metadata
make_iter_kernel Create iteration kernels from an IPM object
mat_power Raise a matrix to a power
mean_kernel Mean kernels for stochastic models
monocarp_proto A 'proto_ipm' for a monocarpic perennial

-- N --

new_fun_form Accessor functions for (proto_)ipm objects

-- P --

parameters Accessor functions for (proto_)ipm objects
parameters.default Accessor functions for (proto_)ipm objects
parameters.proto_ipm Accessor functions for (proto_)ipm objects
parameters<- Accessor functions for (proto_)ipm objects
parameters<-.proto_ipm Accessor functions for (proto_)ipm objects
plot.general_di_det_ipm Plot a matrix or an *_ipm object
plot.ipmr_matrix Plot a matrix or an *_ipm object
plot.simple_di_det_ipm Plot a matrix or an *_ipm object
plot.simple_di_stoch_kern_ipm Plot a matrix or an *_ipm object
plot.simple_di_stoch_param_ipm Plot a matrix or an *_ipm object
pop_state Accessor functions for (proto_)ipm objects
pop_state.default Accessor functions for (proto_)ipm objects
pop_state.proto_ipm Accessor functions for (proto_)ipm objects
print.general_dd_det_ipm Print proto_ipms or *_ipm objects
print.general_dd_stoch_kern_ipm Print proto_ipms or *_ipm objects
print.general_dd_stoch_param_ipm Print proto_ipms or *_ipm objects
print.general_di_det_ipm Print proto_ipms or *_ipm objects
print.general_di_stoch_kern_ipm Print proto_ipms or *_ipm objects
print.general_di_stoch_param_ipm Print proto_ipms or *_ipm objects
print.proto_ipm Print proto_ipms or *_ipm objects
print.simple_dd_det_ipm Print proto_ipms or *_ipm objects
print.simple_dd_stoch_kern_ipm Print proto_ipms or *_ipm objects
print.simple_dd_stoch_param_ipm Print proto_ipms or *_ipm objects
print.simple_di_det_ipm Print proto_ipms or *_ipm objects
print.simple_di_stoch_kern_ipm Print proto_ipms or *_ipm objects
print.simple_di_stoch_param_ipm Print proto_ipms or *_ipm objects

-- R --

right_ev Compute the standardized left and right eigenvectors via iteration
right_ev.general_di_det_ipm Compute the standardized left and right eigenvectors via iteration
right_ev.general_di_stoch_kern_ipm Compute the standardized left and right eigenvectors via iteration
right_ev.general_di_stoch_param_ipm Compute the standardized left and right eigenvectors via iteration
right_ev.simple_di_det_ipm Compute the standardized left and right eigenvectors via iteration
right_ev.simple_di_stoch_kern_ipm Compute the standardized left and right eigenvectors via iteration
right_ev.simple_di_stoch_param_ipm Compute the standardized left and right eigenvectors via iteration
right_mult Right/left multiplication

-- S --

sim_di_det_ex Simple deterministic IPM example

-- T --

truncated_distributions Eviction correction

-- U --

use_vr_model Predict methods in ipmr

-- V --

vital_rate_exprs Accessor functions for (proto_)ipm objects
vital_rate_exprs.default Accessor functions for (proto_)ipm objects
vital_rate_exprs.proto_ipm Accessor functions for (proto_)ipm objects
vital_rate_exprs<- Accessor functions for (proto_)ipm objects
vital_rate_exprs<-.proto_ipm Accessor functions for (proto_)ipm objects
vital_rate_funs Accessor functions for (proto_)ipm objects
vital_rate_funs.ipmr_ipm Accessor functions for (proto_)ipm objects

-- misc --

%^% Raise a matrix to a power