Omeka is an open-source collection management tools with a much more open approach. It is designed to allow the collection to be easily navigated while being hosted on the Internet. There is a large user community and many modules to be added. While it was not created with taxonomy in mind, it would be easy to adapt for any taxonomic needs.

Specify 6

Specify is a research software application, database, and network interface for biological collections information. It manages specimen data such as descriptions of collecting locations, participants and determination histories as well as information about collections transactions such as loans, exchanges, accessions and gifts. Version 6 includes a much more user friendly interface. It supports multiple user connections to MySQL or a local connection to it's own internal database system. The reporting tools are also very flexible and well represented.


Biodiverse is a tool for the spatial analysis of diversity using indices based on taxonomic, phylogenetic and matrix-based (e.g. genetic distance) relationships, as well as related environmental and temporal variations. Biodiverse supports four processes: (1) linked visualisation of data distributions in geographic, taxonomic, phylogenetic and matrix spaces; (2) spatial moving window analyses including richness, endemism, phylogenetic diversity and beta diversity; (3) spatially constrained agglomerative cluster analyses; and (4) randomisations for hypothesis testing. Biodiverse is open-source and supports user developed extensions.

Lucid3 - On-Line Player

The Online Player joins the other two Player options for Lucid3 keys – the Lucid3 Application Player and the Lucid3 Applet – to provide a great service to our clients and your end-users.


CiteULike is a free service to help you to store, organise and share the scholarly papers you are reading. When you see a paper on the web that interests you, you can click one button and have it added to your personal library. CiteULike automatically extracts the citation details, so there's no need to type them in yourself. It all works from within your web browser so there's no need to install any software. Because your library is stored on the server, you can access it from any computer with an Internet connection.


JabRef is an open source bibliography reference manager. The native file format used by JabRef is BibTeX, the standard LaTeX bibliography format. JabRef runs on the Java VM (version 1.4.2 or greater), and should work equally well on Windows, Linux and Mac OS X.


The ‘MorphoBrowser’ database and interface is a 3D visualisation and searching tool for mammalian teeth, accessible over the web. It allows the user to ‘browse’ through the diverse range of tooth morphologies found in mammals, both extinct and extant. While browsing, the three-dimensional shape of the teeth can be viewed from any direction by rotating and scaling the tooth.

Morphometric Software at Suny Stony Brook

The purpose of this directory is to make available programs useful for morphometric analysis. Contributions of additional software are welcome. Contact us with suggestions for improvements and with additional contributions to the morphmet archive. Click on the categories in the contents window (at the left) to obtain lists of available software. The platform required by each program (e.g., DOS, Windows, Mac, Unix) is indicated in red for each program.

SYNTHESYS NAD: Providing itinerary related datasets and tools (for integration, visualisation and quality check)

The funtion of this service is to detect itinerary patterns in georeferenced primary data presumably collected during a collecting event.


GPSBabel is a converter program aimed at GPS systems. It can convert files to and from a large number of free and proprietary formats, such as KML (Google Earth) , csv, GPX, ...

deegree - Free Software for Spatial Data Infrastructures

deegree is a Java Framework offering the main building blocks for Spatial Data Infrastructures. Its entire architecture is developed using standards of the Open Geospatial Consortium (OGC).


gvSIG is a tool oriented to manage geographic information. It is characterized by a user-friendly interface, with a quick access to the most usual raster and vector formats. In the same view it includes local as well as remote data through a WMS, WCS or WFS source. 

Quantum GIS

Quantum GIS (QGIS) is a user friendly Open Source Geographic Information System (GIS) that runs on Linux, Unix, Mac OSX, and Windows. QGIS supports vector, raster, and database formats. QGIS is licensed under the GNU General Public License.



Bibster is a Java-based system which assists researchers in managing, searching, and sharing bibliographic metadata (e.g. from BibTeX files) in a peer-to-peer network.


Xper2 is a flexible and powerful knowledge management tool that helps users make an identification or diagnosis. It is a complete system that can performs management of descriptive data (creation of knowledge databases), and offers many associated tools in order to analyse those descriptive data (control and prevent of inconsistencies, comparison and analysis of taxonomic descriptions, summary of the base). Xper2 has an Editor and a Player for creating and deploying identification keys (free acces keys).


Create key from Delta files. Rachis is an open-source application for the arrangement of entities in a hierarchical system (taxonomy), and an interactive key for the entities in that system. The development of Rachis is in a very early stage at the moment, but progressing at a reasonable pace.

The Electronic Field Guide (EFG) Project

The Electronic Field Guide (EFG) Project has developed a number of web-based applications that facilitate the identification of species and recording of ecological observations. This project is the result of a collaborative effort between the Departments of Computer Science and Biology at the University of Massachusetts Boston, with funding from the National Science Foundation.


Lucid is a flexible and powerful knowledge management tool that helps users make an identification or diagnosis. Lucid3 is an entirely new implementation of the Lucid family of products, providing new features requested by Lucid users and improving the handling of many common functions. The Lucid3 system comprises a Builder and Player for creating and deploying effective and powerful identification and diagnostic keys. The Lucid3 Builder allows an expert in a group of entities (plants, animals, diseases, minerals, archaeological artifacts etc) to create a key that can be deployed over the World Wide Web.


The X:ID system is composed of a Editor and a Browser. The Editor is used to create and edit keys. The Browser is used to run them. X:ID is an XML-based identification and diagnostic key software system. It allows users to create their own web-based diagnostic or identification keys and run them over locally or over the web. The XML-based format is combined with the eXtensible Style Sheet Transformation (XSLT) markup to allow developers to tailor the look of their keys.

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