Module prelude 

A collection of commonly used items to simplify imports.

Re-exports

pub use crate::algorithms;

pub use crate::algorithms::dispatch_algorithm;

pub use crate::algorithms::Algorithm;

pub use crate::routines;

pub use crate::routines::logger;

pub use crate::routines::initialization::Prior;

pub use pharmsol;

pub use crate::routines::settings::*;

pub use crate::structs::*;

Modules

analytical

auc

Trapezoidal AUC/AUMC calculation on &[f64] slices.

builder

cache

Cache mechanisms for [Equation]s

covariate

data

equation

error_model

event

meta

models

observation_error

Error types for observation data processing

ode

parser

residual_error

Residual error models for parametric algorithms (SAEM, FOCE, etc.)

row

Row representation of Data for flexible parsing

sde

simulator

structs

Macros

fa

fetch_cov

fetch_params

lag

ode

Build an equation::ODE while inferring nstates, ndrugs and nout from the maximum literal bracket-indices used in the closures.

Structs

Analytical

Model equation using analytical solutions.

AssayErrorModels

Collection of assay/measurement error models for all outputs.

Bolus

Represents an instantaneous input of drug

Covariate

A time-varying covariate consisting of computed segments

Covariates

A collection of Covariates

Data

The main data container for pharmacokinetic/pharmacodynamic data

ErrorPoly

Error polynomial coefficients for the error model

HashMap

A hash map implemented with quadratic probing and SIMD lookup.

Infusion

Represents a continuous dose of drug over time

Meta

Model metadata container.

NCAOptions

Complete NCA configuration

Neqs

The dimensions of the model: number of states, drug inputs, and output equations.

ODE

Observation

Represents an observation of drug concentration or other measured value

Occasion

An occasion within a subject’s dataset

Prediction

Prediction holds an observation and its prediction at a single time point.

PredictionCache

Thread-safe LRU cache for subject predictions.

ResidualErrorModels

Collection of residual error models for multiple output equations

SDE

Stochastic Differential Equation solver for pharmacometric models.

SdeLikelihoodCache

Cache for SDE likelihood values.

Subject

A subject in a pharmacometric dataset

SubjectNCAResult

Structured NCA result for a single subject

SubjectPredictions

Container for predictions associated with a single subject.

Enums

AUCMethod

AUC calculation method

AssayErrorModel

Model for calculating observation errors in pharmacometric analyses

BLQRule

BLQ (Below Limit of Quantification) handling rule

Censor

CovariateError

Error type for covariate operations

EqnKind

ErrorModelError

Event

Represents a pharmacokinetic/pharmacodynamic event

ExplicitRkTableau

Tableau for OdeSolver::ExplicitRk.

Factor

Parameter that can be either fixed or variable for estimation

Interpolation

Method used to interpolate covariate values between observations

MetricsError

Error type for observation metric computations

ObservationError

Errors arising from observation data processing

OdeSolver

ODE solver selection.

PharmsolError

ResidualErrorModel

Residual error model for parametric estimation algorithms.

Route

Administration route for a dosing event

SdirkTableau

Tableau for OdeSolver::Sdirk.

Constants

DEFAULT_CACHE_SIZE

Default maximum number of entries per cache.

Traits

Cache

Trait for enabling prediction caching on equation types.

Equation

Trait for model equations that can be simulated.

EquationTypes

Trait defining the associated types for equations.

NCA

Extension trait for Non-Compartmental Analysis

NCAPopulation

Extension trait for structured population-level NCA

ObservationMetrics

Observation-level pharmacokinetic metrics (AUC, Cmax, Tmax, etc.)

Predictions

Trait for prediction containers.

State

Trait for state vectors that can receive bolus doses.

SubjectBuilderExt

Extension trait for creating Subject instances using the builder pattern

Functions

auc

∫ C(t) dt from first to last time point. Tmax is auto-detected for LinLog.

auc_interval

Partial AUC over [start, end], interpolating at boundaries.

aumc

∫ t·C(t) dt from first to last time point (for MRT = AUMC / AUC).

get_e2

Computes the effect metric for a dual-site pharmacodynamic model.

interpolate_linear

Linearly interpolate a value at time. Clamps to boundary values.

one_compartment

Analytical solution for one compartment model.

one_compartment_cl

Analytical solution for one compartment model parameterized by clearance.

one_compartment_cl_with_absorption

Analytical solution for one compartment model with first-order absorption, parameterized by clearance.

one_compartment_with_absorption

Analytical solution for one compartment model with first-order absorption.

three_compartments

Analytical for three compartments Assumptions:

three_compartments_cl

Analytical solution for three compartment model parameterized by clearances.

three_compartments_cl_with_absorption

Analytical solution for three compartment model with first-order absorption, parameterized by clearances.

three_compartments_with_absorption

Analytical solution for three compartment model with first-order absorption. Assumptions:

two_compartments

Analytical solution for two compartment model.

two_compartments_cl

Analytical solution for two compartment model parameterized by clearances.

two_compartments_cl_with_absorption

Analytical solution for two compartment model with first-order absorption, parameterized by clearances.

two_compartments_with_absorption

Analytical solution for two compartment model with first-order absorption.

Type Aliases

AnalyticalEq

This closure represents an Analytical solution of the model. See equation::analytical module for examples.

DiffEq

This closure represents the differential equation of the model.

Diffusion

This closure represents the diffusion term of a stochastic differential equation model.

Drift

This closure represents the drift term of a stochastic differential equation model.

ErrorModelDeprecated

Deprecated alias for AssayErrorModel.

ErrorModelsDeprecated

Deprecated alias for AssayErrorModels.

Fa

This closure represents the fraction absorbed (also called bioavailability or protein binding) of the model.

Init

This closure represents the initial state of the system.

Lag

This closure represents the lag time of the model.

M

Type alias for matrix type used in simulations

Out

This closure represents the output equation of the model.

Result

Result<T, Error>

SecEq

This closure represents the secondary equation of the model.

T

Type alias for floating point values used in simulations

V

Type alias for state vector type used in simulations