Open Source Java Ecosystem Sciences Software - Page 3

Moved to: http://parkermills.github.io/phagetherapy/

Plantlore is a botanical occurence database being written in Java. It also has a BIOCASE Provider software based web interface.

PredatorPreySimulation is a graphical Java application for simulating a predator prey ecosystem using the Volterra-Lotka equations.

Software made available by the Residual Analysis blog, primarily having to do with anthropogenic global warming, e.g. GHCN Processor.

Idea of the project is to create a tool, the Connector, to access the Life Cycle Assessment (LCA) software SimaPro via the COM interface.

SiSS(Size Structure Sumilator) Ecological Modeling Simulation for inter-scale model between Individual model and size structure model.

Framework for storing and editing Forestry-related XML data, with a specialised graphical interface for each object type. Plug-in API for adding functionality. Coded in Java, uses WebStart for distribution, swing GUI, ~100k lines of code.

UIBM (= Universal Individual-Based Model) is an agent-based simulation/3d-dvisualization of the dynamics within multispecies plant communities of Northwest Europe, parameterized from databases using universal scaling laws.

The VIP Toolbox is a set of libraries and tools to enable researchers to process image data from the VEGETATION and other remote sensing sensors.

WHATCH’EM simulates the highly non-linear manner in which atmospheric conditions and container characteristics determine water temperature and height, leading to results that are not always intuitive and likely not simulated by simpler empirical models. WHATCH’EM has the capacity to be utilized for other mosquitoes and other container-inhabiting arthropods.

A Java system to decode the WMO BUFR format for weather data and translate it to XML.

Image Processing/Tracking Software for off-line analysis of Field Biology Videos/Recordings.

This project aims to develop various tools for artificial life and complex systems simulations: from the simulator itself to generic generation tools.

Designed to collect fisheries data linked to GPS coordinates from small fixed wing aircraft. SQL database runs on WinCE, Palm PDA & other platforms. Program was written using SuperWaba: a robust java-like development environment for handheld devices.

jCase is a simulation toolkit for the evaluation of combinatorial auctions. Such auctions are used to allocate resources that are complementarities or substitutes.

Peat stratigraphy plotting program

We produced a software for scientists and managers working with marinas, and small harbor. Our software is able to predict the distribution of portuality and vulnerability risk.

mesoFON is an individual-based mangrove forest model. It is a Java implementation of the KiWi model done with RePast Simphony. It contains several new features: (1) You can add up to 10 species via the GUI. However, in principle, the number of species to be included programmatically is unlimited. (2) You can use a variety of growth functions via typing them in as a string on the GUI. (3) The model is transparent, sinc it comes with the Eclipse workbench of RePast.

Starting from GIMMS values as ascii data (each line will be treated as individual time series), the application can smooth the ts - values by applying different algorithm that are based on Fouriertransformation. Separation of seasonal figure as well as the detection of linear trends is possible. Possible breaks in longterm mean can be detected with a change-point analysis using CuSum algorithms. Phenological events such as start-of-season, day-of-max/day-of-min, end-of-season can be determined via threshold-based algorithms or via analysis of max. increase of NDVI during green-up. These analyses work also for multimodal phenologies where individual seasons (partly) interfere each other. User can navigate through all steps of analysis via GUI or can define complex workflows that will be processed in batch-mode.

An online database project with database and web interface to archive, manage, search and download individual-based life history data that have been collected from wild primate populations.

L'objectif de ce projet est de mettre en place une simulation de vie articielle bâtie sur le principe de proie-prédateur, mettant en place un certain nombre de concepts informatiques et biologiques.

powerPlant is a plant modelling tool based on parametric plant descriptions, producing highly detailed models that can be exported to 3ds. Deriving similar plants is a matter of 1 click! Complete scenes can be composited with the integrated scene editor.

CS-Studio is a user interface framework for control systems (EPICS, TANGO, TINE, ...) based on Eclipse RCP. Among the features are synoptic/archive/trend/alarm displays.