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deSolve - Solvers for Initial Value Problems of Differential Equations ('ODE', 'DAE', 'DDE')

Functions that solve initial value problems of a system of first-order ordinary differential equations ('ODE'), of partial differential equations ('PDE'), of differential algebraic equations ('DAE'), and of delay differential equations. The functions provide an interface to the FORTRAN functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK' collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk' and a C-implementation of solvers of the 'Runge-Kutta' family with fixed or variable time steps. The package contains routines designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D partial differential equations ('PDE') that have been converted to 'ODEs' by numerical differencing.

Last updated

openblasfortranglibc

14.11 score 3 stars 464 dependents 9.2k scripts 169k downloads

proto - Prototype Object-Based Programming

An object oriented system using object-based, also called prototype-based, rather than class-based object oriented ideas.

Last updated

11.44 score 11 stars 114 dependents 633 scripts 23k downloads

FME - A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability and Monte Carlo Analysis

Provides functions to help in fitting models to data, to perform Monte Carlo, sensitivity and identifiability analysis. It is intended to work with models be written as a set of differential equations that are solved either by an integration routine from package 'deSolve', or a steady-state solver from package 'rootSolve'. However, the methods can also be used with other types of functions.

Last updated

8.71 score 8 dependents 416 scripts 3.4k downloads

growthrates - Estimate Growth Rates from Experimental Data

A collection of methods to determine growth rates from experimental data, in particular from batch experiments and plate reader trials.

Last updated

7.58 score 28 stars 114 scripts 594 downloads

simecol - Simulation of Ecological (and Other) Dynamic Systems

An object oriented framework to simulate ecological (and other) dynamic systems. It can be used for differential equations, individual-based (or agent-based) and other models as well. It supports structuring of simulation scenarios (to avoid copy and paste) and aims to improve readability and re-usability of code.

Last updated

6.10 score 211 scripts 647 downloads

qualV - Qualitative Validation Methods

Qualitative methods for the validation of dynamic models. It contains (i) an orthogonal set of deviance measures for absolute, relative and ordinal scale and (ii) approaches accounting for time shifts. The first approach transforms time to take time delays and speed differences into account. The second divides the time series into interval units according to their main features and finds the longest common subsequence (LCS) using a dynamic programming algorithm.

Last updated

5.27 score 1 stars 38 dependents 55 scripts 1.5k downloads

marelac - Tools for Aquatic Sciences

Datasets, constants, conversion factors, and utilities for 'MArine', 'Riverine', 'Estuarine', 'LAcustrine' and 'Coastal' science. The package contains among others: (1) chemical and physical constants and datasets, e.g. atomic weights, gas constants, the earths bathymetry; (2) conversion factors (e.g. gram to mol to liter, barometric units, temperature, salinity); (3) physical functions, e.g. to estimate concentrations of conservative substances, gas transfer and diffusion coefficients, the Coriolis force and gravity; (4) thermophysical properties of the seawater, as from the UNESCO polynomial or from the more recent derivation based on a Gibbs function.

Last updated

5.16 score 2 stars 3 dependents 134 scripts 654 downloads

qualV - Qualitative Validation Methods

Qualitative methods for the validation of dynamic models. It contains (i) an orthogonal set of deviance measures for absolute, relative and ordinal scale and (ii) approaches accounting for time shifts. The first approach transforms time to take time delays and speed differences into account. The second divides the time series into interval units according to their main features and finds the longest common subsequence (LCS) using a dynamic programming algorithm.

Last updated

4.85 score 38 dependents 55 scripts 1.1k downloads

FAdist - Distributions that are Sometimes Used in Hydrology

Probability distributions that are sometimes useful in hydrology.

Last updated

4.84 score 4 stars 2 dependents 58 scripts 505 downloads

FAmle - Maximum Likelihood and Bayesian Estimation of Univariate Probability Distributions

Estimate parameters of univariate probability distributions with maximum likelihood and Bayesian methods.

Last updated

3.88 score 15 scripts 186 downloads

biblioview - A Shiny Web Portal and Abstract Enricher for Zotero Libraries

Provides automated pipelines to fetch Zotero group libraries, generate APA citations, and harvest citation counts and missing abstracts from external metadata APIs (Crossref, OpenAlex, and Europe PMC).

Last updated

bibliographydatatableshinyzoteroquarto

3.70 score

antibioticR - Analysis of Antibiotic Resistance Data

Antibiotic resistant bacteria are a serious threat to human health. This package aims to collect tools and functions to analyze environmental resistance data, especially minimal inhibitory concentration ('MIC') and inhibition zone diameters ('ZD').

Last updated

3.54 score 7 stars

cardidates - Identification of Cardinal Dates in Ecological Time Series

Identification of cardinal dates (begin, time of maximum, end of mass developments) in ecological time series using fitted Weibull functions.

Last updated

3.30 score 20 scripts 379 downloads

mlfeaturer - Machine Learning Feature Engineering with R

Utilities for scaling and transformation of features in the context of machine learning regression problems.

Last updated

quarto

3.18 score 2 scripts

cardidates - Identification of Cardinal Dates in Ecological Time Series

Identification of cardinal dates (begin, time of maximum, end of mass developments) in ecological time series using fitted Weibull functions.

Last updated

3.00 score 20 scripts 369 downloads

outfloweR - Simulation of Reservoir Mass Balance

A demonstration of reservoir level and stratification management, based on simple mass balances.

Last updated

quarto

3.00 score 1 stars

salmoRodeo - A 1-layer ecological lake model in Petersen-Gujer matrix notation

The package implements a 1-layer version of the ecological lake model SALMO using a tabular Petersen-Gujer matrix description. It simulates main components of the pelagic foodweb in a shallow, non-stratified lake.

Last updated

quarto

2.70 score