Ecosystem Sciences Software

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Ecosystem Sciences Software

  • WhatsUp® Gold - Ranked #1 For Network Monitoring WhatsUp® Gold - Ranked #1 For Network Monitoring Icon
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  • Bio7 Icon

    Bio7

    The application Bio7 is an integrated development environment for ecological modelling and contains powerful tools for model creation, scientific image analysis and statistical analysis. The application itself is based on an RCP-Eclipse-Environment (Rich-Client-Platform) which offers a huge flexibility in configuration and extensibility because of its plug-in structure and the possibility of customization.

  • Virtual Laboratory Environment Icon

    Virtual Laboratory Environment

    A multi-modeling and simulation environment to study complex systems

    VLE is a multi-modeling and simulation environment to study complex dynamic systems. VLE is based on the discrete event specification DEVS. and it implements the DSDE formalism (A merge of Dynamic Structure DEVS, DSDEVS, with Parallel DEVS, PDEVS). VLE provides a complete set of C++ libraries, called VFL (VLE Foundation Libraries), to develop DEVS models, to gets results of simulations, to launch simulation on cluster. The models can be developed with the DEVS formalism or with the classical mathematical formalism: Ordinary Differential Equation with Euler, Range-Kutta or QSS integrator, Finite state automaton (FDDEVS, UML State chart, Hybrid Petri net). The VLE environment provides an IDE to develop C++ models, DEVS coupled models. VLE have also three ports to use the VFL with Python, Java and R programming languages.

  • RT4Bio

    R Tools for Biologists (RT4Bio) is a multi-functional package writen in R language developed in the Laboratory of Behavioral and Computational Ecology at State University of Montes Claros - MG - Brazil. Formerly known as RRJ.

    Downloads: 4 This Week Last Update: See Project
  • Life Cycle Assessment Spreadsheet

    The Life Cycle Assessment Spreadsheet allows you to calculate carbon footprints and other environmental impacts for given product systems. Use requires basic skills in LCA and matrix algebra, but rewards effort with professional analytical tools.

    Downloads: 2 This Week Last Update: See Project
  • SimAssem Icon

    SimAssem

    For processing and/or simulating species assemblage data.

    SimAssem is a tool for investigating the performances of species richness estimators across widely ranging assemblages and survey designs. Assemblages are simulated by specifying the: 1) number of species, 2) total abundance of individuals, 3) abundance distribution, 4) spatial configuration, 5) species detection probabilities, 6) survey design, and 7) number of grid cells to survey (out of a square grid comprised of 10,000 cells). SimAssem also processes existing encounter data and formats existing and simulated encounter data for other programs. SimAssem, along with the open source code, will hopefully give researchers and managers a tool for assessing the development of new estimators and evaluating potential decisions in a simulated environment. More information on SimAssem is given in Chapter 2, 'SimAssem: a program for simulating species assemblages and estimating species richness', in the dissertation 'Simulating species assemblages and evaluating species richness estimators'.

    Downloads: 2 This Week Last Update: See Project
  • incertR

    Incertitudes de Mesures de la Qualité de l'Air (Gaz et Particules)

    Ensemble de fonctions permettant, à partir d'une base de données contenant les paramètres analyseurs, de réaliser les calculs d'incertitudes sur les mesures automatiques agrégrées de qualité de l'air.

    Downloads: 2 This Week Last Update: See Project
  • FLR

    A library of R packages for use in fisheries modelling, including the evaluation of management strategies and stock assessment.

  • hSDM Icon

    hSDM

    R package for hierarchical species distribution models

    hSDM is an R package for hierarchical species distribution models. Such models allows interpreting the observations (occurrence and abundance of a species) as a result of several hierarchical processes including ecological processes (habitat suitability, spatial dependence and anthropogenic disturbance) and observation processes (species detectability). Hierarchical species distribution models are essential for accurately characterizing the environmental response of species, predicting their probability of occurrence, and assessing uncertainty in the model results.

    Downloads: 1 This Week Last Update: See Project
  • AFLP

    An R package to normalise, classify and analyses raw AFLP data.

    Downloads: 0 This Week Last Update: See Project
  • Barber-Cushman Model

    Barber-cushman model scripted in R

    Downloads: 0 This Week Last Update: See Project
  • Distance Analysis Engines

    We have moved, the project is now at https://github.com/jlaake/mrds

    Downloads: 0 This Week Last Update: See Project
  • ElicitN

    Interface for expert elicitation of numbers

    ElicitN uses R and a tcltk gui interface for eliciting a number from an appropriate expert. The code has been modified from it's original version designed specifically for eliciting the number of species on coral reefs from expert taxonomists. For more information please refer to: http://dx.doi.org/10.1016/j.envsoft.2011.11.011

    Downloads: 0 This Week Last Update: See Project
  • PAMGuide

    An analysis tool in MATLAB and R for acoustic habitat characterisation

    PAMGuide is acoustic analysis software for the characterisation of the acoustic environment from sound recordings. PAMGuide can be used to produce calibrated spectrograms and statistical analyses of sound levels, and is provided in both MATLAB and R. A Tutorial on getting started with PAMGuide can be downloaded here: http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12330/suppinfo PAMGuide was published as supplementary material to the following Open Access journal article: Merchant, N.D., Fristrup, K.M., Johnson, M.P., Tyack, P.L., Witt, M.J., Blondel, P., Parks, S.E. (2015). Measuring acoustic habitats. Methods in Ecology and Evolution. http://dx.doi.org/10.1111/2041-210X.12330

    Downloads: 0 This Week Last Update: See Project
  • R world mapping and visualisation

    An R package for visualising global scale data by easy import & display of country level & gridded data. Rworldmap will also provide access to existing datasets from earth to social sciences and facilitate their combination to provide insights for policy

    Downloads: 0 This Week Last Update: See Project
  • Reserve Design Validation Framework

    rdv-framework is designed to evaluate and compare ecological conservation reserve selection alogrithms .

    Downloads: 0 This Week Last Update: See Project
  • blender

    blender is an R package that helps community ecologists study biotic homogenization using an analytical model as well as pairwise comparisons among locations.

    Downloads: 0 This Week Last Update: See Project
  • ichthyoanalysis

    R package for analysis of ichthyoplanckton data. Please visit the ichthyoanalysis WIKI for more information and for collaboration

  • kinfit/mkin

    kinfit and mkin are R extensions that perform kinetic evaluation of chemical degradation data for deriving modelling and persistence parameters in the context of risk assessment of chemical substances. Development has moved to R-Forge.

    Downloads: 0 This Week Last Update: See Project
  • Downloads: 0 This Week Last Update: See Project
  • phcfM Icon

    phcfM

    R package for modelling anthropogenic deforestation

    phcfM is an R package for modelling anthropogenic deforestation. It was named after the REDD+ pilot-project 'programme holistique de conservation des forêts à Madagascar'. phcfM includes two main functions: (i) demography(), to model the population growth with time in a hierarchical Bayesian framework using population census data and Gaussian linear mixed models and (ii) deforestation(), to model the deforestation process in a hierarchical Bayesian framework using land-cover change data and Binomial logistic regression models with variable time-intervals between land-cover observations. The two functions use embedded Gibbs samplers written in C++ with the Scythe statistical library to reduce computational time.

    Downloads: 0 This Week Last Update: See Project
  • radR

    Processing and visualization of radar data for biological applications, atop the statistical language R.

    Downloads: 0 This Week Last Update: See Project
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