Open Source Mac Ecosystem Sciences Software - Page 3

The Hydroponic Automation Platform Initiative (HAPI) develops and provides hardware and software components for automating food production using hydroponic, aquaponics, and precision agriculture techniques. High-yield production in urban settings is one of the primary goals. Artifacts include hardware design (mainly Arduino-based), firmware, management software and reporting modules.

IBIS - Interactive Biodiversity Informatics Software - is software to identify species or other taxa. Intended users range from school children or citizen scientists to ecologists or taxonomists. The identification keys can be embedded in CMS or Wiki

The Illinois Farm Sustainability Calculator (IFSC) is Excel workbook designed to evaluate the sustainability of any real or envisioned farm in the state of Illinois.

Jazoo. The Zoo of virtual evolving creatures. Mostly focused on evolving communication between intelligent agents. It's in VERY early stage. Everyone's invited to join, participate, suggest, discuss etc.

JaWator is a Wa-Tor JavaApplet; a predator-prey simulation resembling a natural ecosystem, this Cellular Automaton delivers fluctuations similar to the Lotka-Volterra equation. Inspired by A.K. Dewdney, Wa-Tor ecosystem (Scientific American, 1984)

Run-time libraries to support the Kitchen Sink, an all-purpose chemical process control board, based on the Atmel AVR ATmega1280 chip, using the Arduino core libraries.

KNeTS (Knowledge Elicitation Tools) is a survey tool to create multi-agent models based on local knowledge using pattern analysis to identify rules that are iteratively validated with the informant. The final output is a knowledge-based multi-agent model

Life Science Identifier (LSID) Specification is a globally unique identifying scheme for information resources on the life sciences domain. It is based on Internet standards such as DNS, URN, HTTP, RDF, SOAP, WSDL, and web services.

Luscinia is a program for archiving and analyzing field sound recordings (especially of animals). It incorporates an interface to a database, spectrogram measurement algorithms, sound comparison algorithms, and statistical analysis.

MBAS -- Macro-Biological Analysis System -- provides a set of interoperable tools for aid in the analysis of biological data. The backing database is currently PostgreSQL and the primary language is C, though some data entry tools are written in Java.

MED-FOES is an implementation of a stochastic Agent-Based Simulation (ABS) system for analyzing demographic changes in a single population of Medfly (Ceratitis capitata) over time. The simulation currently takes population extinction as a given because it aims to give us better estimates of necessary quarantine lengths in areas where Medfly is not currently established but does repeatedly invade. Thus the objective of this software is to estimate the time to local extirpation based on known ranges of developmental, survivorship and reproductive parameters, as well as assumed ranges of an eradication pressure parameter. For a complete analysis and estimate of time to extirpation one would execute a large number of individual simulations evenly distributed over parameter space to estimate the time at which an arbitrary percentage of the simulations show extirpation.

Webapplication to collect, store, display and share information about natural events in proteced areas.

Nelder plot (Nelder 1962) is an experimental design for testing a multiple tree spacings in a single plot. The shape of plot is circular with some number of concentric wheels or arcs radiating outward and the spokes connecting the center. The intersections of spokes and arcs are the tree positions. The tree position on different wheels represent a different the tree spacing distance or tree density. This design eliminates the need for separate experimental plots for each tree density. The difficulties with Nelder plot design is their uncommon layout and complex parameterization (Parrott et al. 2012). This computer-aided tool for designing the Nelder plot can be very useful for the practical implementation of this experimental design.\r\n\r\nReferences\r\nNelder JA (1962) New kinds of systematic designs for spacing experiments. Biometrics 283–307\r\nParrott DL, Brinks JS, Lhotka JM (2012) Designing Nelder wheel plots for tree density experiments. New Forests 43:245–254.

The class libraries here provide infrastructure for creating simulations of low energy nuclear physics experiments, as well as some useful working programs that do simple simulations and analysis of experiments performed with magnetic spectrographs.

The OBO-Annotator is a semantic NLP tool that is designed to give its end-users a great deal of flexibility to combine any number of OBO ontologies from the OBO foundry regardless of their format and use them to annotate text-bases.

Oxygen Model for Microtidal Estuaries and Lagoons-OMMEL. Initially designed to describe O2 dynamics in Alfacs Bay (Ebre Delta, NW Mediterranean, Spain), but usable for any marine coastal ecosystem with small tides. http://tdr.cesca.es/TDX-0222108-113814

Obs-dm aims to provide a robust and reliable way to collect, analyze, and share observational data. It is being designed for extendability into other areas such as fisheries and habitat science.

OpenAMIS (Open AgroMeteorological Information System) is customable free and open software for websites providing agrometeorological information to farmers and agroindustry.

The PAMGUARD project develops software to help detect, locate and classify marine mammals using Passive Acoustic Monitoring. This project is being migrated to github at https://github.com/PAMGuard. Please go there for the latest updates. thank you sourceforge for hosting us for all these years.

phpWeatherMap is a set of php scripts to generate weather maps for (almost) every country in the world. You can easily download new maps and integrate them into phpWeatherMap. Map and weather data is available for free on the net.

PhaenUhr is an easy to use graphical Java application to visualize the impact of climate change on seasonal biological phenomena as two nested phenological clocks. You can configure the clocks in many ways and export them to standard graphic formats.

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

Physical modelling of water transport in plants

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.