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  1. EDIT WP8.1.1 Overview of Taxonomy courses. Tue, 12/04/2007 - 16:46

    The present link is a listing of the existing training resources for taxonomy collected by the European Distributed Institute of Taxonomy (EDIT, Workpackage 8 - Training and Public Awareness)

  2. Actkey Wed, 10/17/2007 - 09:34

    Hong Song of the Missouri Botanical Garden, developed this Java-based program using MySQL as the database server. Botanists interested in sharing their data sets (e.g., DELTA, MS Excel, MS Access, Lucid formats) via this Web-based system, or interested in translating any of the character sets into another language may contact Hong Song or Anthony R. Brach.

  3. AnimalBase Wed, 10/17/2007 - 09:43

    The AnimalBase database is primarily established to link the old literature with the names of the animals described therein. We have continuously gone through the old works, from 1757 onwards, and entered all correctly described new animal names (genera and species taxa) by hand according to a standard established by our working group.

    Today the database should include all zoological taxa described from 1757 until 1770. The names are entered into the database along the original literature and largely independently from other databases and secondary literature sources, so that errors will not be duplicated.

  4. Bauble v0.9.7 Thu, 07/15/2010 - 09:52

    Bauble is a software application to help manage a collection of botanical specimens. It is intended to be used by botanic gardens, herbaria, arboreta, etc. It can use different database backends and is tested against SQLite and PostgreSQL. It can generate reports through an XSL formatter backend. There is no fancy report designer but there is an interface that allows you to pass the results of a search through an XSL formatter. This allows you to layout your data any way you wish and save it in many formats including PDF, XML, or HTML. Users can tag any arbitrary data stored in a Bauble managed database with arbitrary names. This way you can create collections of records organized the way you want with names you give them.

  5. Berlin Model v2.0 Wed, 10/17/2007 - 09:40

    The Berlin Model is based on the IOPI model and various later implementations of the basic principles laid out therein. It fully incorporates "potential taxa" (taxa as circumscribed by a reference) as well as the full complexity of botanical names according to the rules of botanical nomenclature. Actually the Berlin Model is implemented as a SQL Server 2000 database. Please contact us for any question or comment.

  6. BgBase Thu, 07/15/2010 - 09:47

  7. BGBM Collection Management Software links v17-02-2007 Thu, 01/17/2008 - 14:05

    This page lists software which is used in collection management. It is an uncritical listing, the software has not been tested or approved by the subgroup in any way. The selection is based on the following criteria:

    • The software helps to manage specimens or observations of biological objects ("units"). Taxonomic tools helping to generate checklists etc. are not included if they do not include unit management functions.
    • The software must be functional and in use by at least one collection (however, some beta versions have been included).
    • The software must be freely available (for free or as a commercial product).
    • It should not need re-programming to be adapted by the new user.
    • Some help in the installation of the software should be available from the authors.

  8. BibDesk v1.3.13 Thu, 01/17/2008 - 13:52

    BibDesk is a bibliographic reference manager for Mac OS X. BibDesk is designed to help organize and use bibliographic databases in BibTeX .bib format. In addition to manual typing, BibDesk lets you drag & drop or cut & paste .bib files into the bibliographic database and automatically opens files downloaded from PubMed. BibDesk also keeps track of electronic copies of literature on your computer and allows for searching your database through several keys.

    BibDesk integrates well with TeX for creating citations and bibliographies. This integration includes a Citation search completion service, and drag & drop (cut & paste) support for adding citations to TeX files.

  9. BibMaster v3.7 Thu, 07/15/2010 - 14:51

  10. Bibster v1.1.3 Thu, 05/24/2007 - 09:26

    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.

    The advantage of the system is it provides the possibility to search on a distributed peer-to-peer network using Semantic Web technologies. It provides an easy way to share data with other researchers.

  11. Biodiverse v0.9 Wed, 09/23/2009 - 04:01

    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. It can be used both through a graphical user interface (GUI) and through user written scripts.

  12. Biodiversity Heritage Library (BHL) Wed, 10/17/2007 - 09:52

    Ten major natural history museum libraries, botanical libraries, and research institutions have joined to form the Biodiversity Heritage Library Project. The group is developing a strategy and operational plan to digitize the published literature of biodiversity held in their respective collections. This literature will be available through a global “biodiversity commons.”

    The participating libraries have over two million volumes of biodiversity literature collected over 200 years to support the work of scientists, researchers, and students in their home institutions and throughout the world. The 10 member libraries of the Biodiversity Heritage Library (BHL) members now have over 1.124 million pages of key taxonomic literature available on the web.

    The BHL will provide basic, important content for immediate research and for multiple bioinformatics initiatives. For the first time in history, the core of our natural history and herbaria library collections will be available to a truly global audience. Web-based access to these collections will provide a substantial benefit to people living and working in the developing world -- whether scientists or policymakers.

  13. Biomapper. A GIS-toolkit to model ecological niche and habitat suitability Wed, 10/17/2007 - 09:50

    Biomapperis a kit of GIS and statistical tools designed to build habitat suitability models and maps for any kind of animal or plant. It is centred on the Ecological Niche Factor Analysisthat allows to compute models without the need of absence data.

  14. BioOffice Thu, 07/15/2010 - 09:05

    BioOffice features an integrated database and geographic information system, options for (spatial) data query and analysis, individual configuration, and easy data exchange between users.

  15. Biota - The Biodiversity Database manager v2.04 Mon, 07/12/2010 - 07:26

    Biota 2 is a second generation Collection Management system succeeding Biota 1. It has several exemplary features including a versatile help system and very flexible support for non-compliant data formats. It supports images in the collection system allowing for 10 different leading image formats and an unlimited number of images linked to any one specimen, further allowing the images to be displayed as thumbnails to be opened at full size with zoom capabilities. It also offers an optional web hosting platform that allows institutions to host their collections online for web visitors to browse through. The web hosting is provided at an additional cost.

  16. Biótica v4.5.5 Wed, 07/14/2010 - 08:19

  17. BRAHMS - Botanical Research and Herbarium Managment System v6.7 Fri, 07/16/2010 - 07:38

    The BRAHMS management system is design specifically for botanical collections, it includes a broad range of help and support documentation and even resources for online training. There are functions for outputting reports in a variety of customizable templates. It includes a system for generating distribution summaries and diversity indicators to different geographic scales. It also supports Publishing data online with an updating service and provides the option to join your database with online groups of research projects or regional herbaria. The online publishing is accomplished with a seconds software package found on their web site.

  18. CiteULike Wed, 01/16/2008 - 16:00

    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.

  19. CLIMEX Thu, 10/18/2007 - 13:01

    A commercial package that enables to asses the risk of pest establishing in a new location and the potential success or failure of a biological control agent from the current locations.

  20. Collection Space v0.8 Fri, 07/16/2010 - 12:27

  21. deegree - Free Software for Spatial Data Infrastructures vdeegree 2.1-pre (recommended) Mon, 11/24/2008 - 13:23

    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).

  22. DEEMY Tue, 11/10/2009 - 10:09

    An Information System for Characterization and DEtermination of EctoMYcorrhizae
    The goal is
    • to offer a online database system for multiple usage and therewith dissemination of expert knowledge especially by providing public access to database generated identification keys, natural language descriptions and illustrations of ectomycorrhizae
    • to promote common standards on descriptive data connected with taxonomic names of ectomycorrhizae to facilitate interoperability and data exchange

  23. DELIA - The DELTA Integrator v1.0 Wed, 10/17/2007 - 09:59

    DELIA, the DELTA Integrator, extends the utility of DELTA format files by providing functionality that the (separate) CSIRO DELTA System software package can't. It provides a way to manage multiple datasets coded in DELTA and is designed to integrate with and complement the existing DELTA System suite of programs. It is designed for those DELTA users who are interested in managing their data in an integrated environment. We found only a beta version available.

  24. DELTA Intkey tutorial Mon, 12/07/2009 - 16:19

    This is particularly clear and concise tutorial on the DELTA Intkey sofware for interactive identification. PDF document by A. Spooner and A. Chapman (western Autralian Herbarium, Department of Environment and Conservation).

  25. Delta-Intkey v5.11 Fri, 11/30/2007 - 16:37

    The DELTA System is an integrated set of programs based on the DELTA format. The facilities available include the generation and typesetting of descriptions and conventional keys, conversion of DELTA data for use by classification programs, and the construction of Intkey packages for interactive identification and information retrieval.

  26. DesktopGARP v1.1.6 Wed, 10/17/2007 - 10:00

    DesktopGarp is a software package for biodiversity and ecologic research that allows the user to predict and analyze species distributions. GARP tries, interactively, to find non-random correlations between the presence and absence of the species and the values of the environmental parameters, using several types of rules. Each rule type implements a different method for building species prediction models. GARP as input takes enivonmental data and species occurrence localities. It generates random absence data.

  27. Digital Taxonomy Software Thu, 01/17/2008 - 14:07

    Digital Taxonomy intends to provide a range of links on software, methodologies, standards, data sources, and projects relatedto biodiversity data management, with emphasis on open source and free softwaretools for biodiversity informatics.

  28. DIVA-GIS v6.0 Mon, 11/24/2008 - 13:29

    DIVA-GIS is a free and open source geographic information system (GIS) to make maps of species distribution data and analyze these data. DIVA-GIS was specifically developed at CIP for use with genebank data such as available through national or international genebank documentation systems and SINGER. It consists many useful tools such as Grid Calculator (multiplying, adding rasters), Neighbourhood ( changing raster resolution) and Georeference Image. DIVA-GIS also has an Ecological Niche Modeling tool which can be used to predictive modeling ( it uses Bioclim and Domain algorithms). From DIVA-GIS desktop one can directly connect to DIVA-GIS Free GIS Data site and download climate grids, DEM, sattelite images or country level data.

  29. DIVA-GIS Annapurna Wed, 10/17/2007 - 10:01

    Another version of the same DIVA-GIS programme.

  30. Diversity Workbench Tue, 11/10/2009 - 10:49

    The Diversity Workbench is work in progress, aiming at developing a set of information models and application components that collaborate through agreed software interfaces. That is, each component of the Workbench applications uses services from other applications, but at the same time does not need to know about the internal design and implementation of them (encapsulation principle). The goal is increased reuse and collaboration across project and national borders.

  31. DiversityDescriptions (DeltaAccess) v1.9 Mon, 12/03/2007 - 16:35

    A SQL interface to DELTA, the Description Language for Taxonomy, implemented in Microsoft Access 97, 2000, and 2002 (= XP). DeltaAccess can be used in 3 ways: a) You can use DeltaAccess simply as a module to import DELTA coded text files into a database of your choice and then write an independent application for that database (e. g. a web interface). b) You can keep your data in DELTA coded text files, and use DeltaAccess as a one-way import tool to analyze your data (incl. cross-tabulations, and charts), print form sheets to edit your data off-line, or to generate dynamic html/www output. c) You can use DeltaAccess as the central data repository around which your work is organized. You can thus make full use of advanced editing functions of DeltaAccess, like the multiple item editor.

  32. DiversityMobile Tue, 11/10/2009 - 10:50

    The Diversity Mobile Wiki is a platform for information networks in the context of DiversityMobile (for mobile devices and smartphones), the Diversity Workbench and the DaltOn framework. Currently it is focused on a DFG-funded project "Setting up an Information Network on Biological Research Data gained in the Field up to the Sustainable Storage in a Primary Data Repository (I-B-F)".

  33. DiversityNavigator Tue, 11/10/2009 - 10:30

    DiversityNavigator is a rich-client application for viewing, editing, and analyzing data. DiversityNavigator is written in java and can access both local and server based databases. It is compatible to a variety of database engines.

  34. Dryades (Italian branch of the European Project KeyToNature) Thu, 07/03/2008 - 15:45

    Dryades is the Italian branch of the European Project KeyToNature. The website of Dryades gives access to interactive guides for the identification of plants, fungi and animals, to iconographical archives, and to databases on the biodiversity of Italy. A special section is dedicated to products specifically designed for schools. Identification tools are available in 10 languages.
    Some of the projects available on the website are public and some are not.

  35. Earth Cape v1.2.5.6 Wed, 07/14/2010 - 14:30

  36. EcoSim. Null model software for ecologists Wed, 10/17/2007 - 10:04

    EcoSim allows you to test for community patterns with non-experimental data performing Monte Carlo randomizations to create “pseudo-communities”, then statistically compares the patterns in these randomized communities with those in the real data matrix.

  37. Emu v4.0.01 Fri, 07/16/2010 - 09:44

  38. Endnote v10 Thu, 05/24/2007 - 09:14

    EndNote connects to Internet-based libraries of reference data (there are many free-access databases in addition to those that your organization or institution subscribes to) and locate the references for citation. EndNote stores, catalogues and indexes these references in your own custom reference databases, together with images, figures, files and links that you want to include or cite. And EndNote integrates into your word processor to make it easy to insert citations and create bibliographies and figure lists, with every entry automatically and consistently formatted in the style you, or your publishers, prefer.

  39. EstimateS. Statistical estimation of species richness and shared species from samples Wed, 10/17/2007 - 10:07

    EstimateS is a free software application for Windows and Macintosh operating systems that computes a variety of biodiversity functions, estimators, and indices based on biotic sampling data. Some features require species relative abundance data, others only species presence/absence data.

  40. FloraMap Wed, 10/17/2007 - 10:09

    FloraMap is a software linked to agroclimatic and other databases able to showing the most likely distribution of wild species in nature.

  41. GBIF MAPA Wed, 10/17/2007 - 10:14

    A GBIF demonstration project which allows users to query the GBIF cache using names obtained through the Catalogue of life and to map and analyse the resultant record set. The Survey Gap Analysis (SGA) tool helps to design a biodiversity survey that will best complement the existing survey effort by identifying those areas least well surveyed in terms of environmental conditions. The Species Richness Assessment (SRA) tool provide an estimate of the number of species in an area; and to gain insight into the adequacy of sampling based on abundance distributions for those species.

  42. GeoDa. An Introduction to Spatial Data Analysis Thu, 10/18/2007 - 13:02

    GeoDa is the latest incarnation in a long line of software tools designed to implement techniques for exploratory spatial data analysis on lattice data (points and polygons). The free program provides a user friendly and graphical interface to methods of descriptive spatial data analysis, such as spatial autocorrelation statistics, as well as basic spatial regression functionality.

  43. GIS data downloads Mon, 11/24/2008 - 13:28

    Download of Geographic Information Systems (GIS) data layers.
    Free GIS layers from different sources, in Idrisi and Shape formats, etc. to make easy download and use of this information.
    Some GIS layers are still under construction, and the web page with links to the information is provisional.

  44. GPSBabel Thu, 10/18/2007 - 12:57

    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, ...

  45. GPSphotolinker v1.5.1 Thu, 10/18/2007 - 12:58

    GPSPhotoLinker can be used to save location and GPS position data to a photo. The latitude and longitude recorded by your GPS unit while you were taking photos can be linked, and saved, to the photos. GPSPhotoLinker automatically enters the city, state and country into the metadata.


  46. gvSIG Mon, 06/04/2007 - 09:37

    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.

    It is aimed at users of geographic information, whether professionals or civil servants (city councils, councils, regional councils or ministries) from any part of the world ( at the moment its interface is in Spanish, Valencian, English, Basque, Gallego, Czech, Chinese, French, German, Italian and Portuguese), in addition to being freeware.

    Given its freeware nature (open source) it is highly interesting for the international community of developers and, in particular, for university settings due to its R&D&I component. In fact, special emphasis has been placed on the expansion of the project so that potential developers can easily expand the functions of the application, as well as develop completely new applications from the libraries used in gvSIG (as long as they comply with the GPL license).

  47. Herbar v3.5 Fri, 07/09/2010 - 13:26

    This collection management software is made for botanical collections. It comes with a user friendly interface and many strong features. It has a long history of many stable version releases, adding new features steadily. It has an integrated system using Microsoft word for designing labels with or without bar-codes. It has an option to export data to Internet friendly formats including ASP web pages, TSA, REMIB, and Darwin Core version 2. It allows for management of loans and requests, and includes a geo-referencing system.

  48. HyperNiche Thu, 10/18/2007 - 13:01

    HyperNiche is a software for nonparametric regression, providing a flexible tool for multiplicative habitat modelling, habitat models where the predictors are combined multiplicatively rather than additively.

  49. IndExs – Index of Exsiccatae Tue, 11/10/2009 - 08:48

    "IndExs - Index of Exsiccatae" is a bibliography of exsiccatal series. With more than 2050 data entries it is nearly complete. "IndExs" comprises information on titles, abbreviations and bibliography of exsiccatae. Exsiccatae are defined here as "published, uniform, numbered sets of preserved specimens distributed with printed labels" (Pfister 1985). The single search result gives you all bibliographically important information on the series: the editor(s), title in its bibliographical correct form, standardized abbreviation of the series as to cite in specimen lists of scientific papers or to add in your collection management system, the place of publication and the group(s) of organisms distributed. Additionally, the first and last number of the series as well as the corresponding year of the first and last issue are mentioned. Where preceding and / or superseding series do exist this information is linked. Images of single examplary labels are included for 60% of the series. They are taken from material located in more than 20 public herbaria worldwide.

  50. International Plant Names Index (IPNI) Thu, 01/17/2008 - 17:35

    The International Plant Names Index (IPNI) is a database of the names and associated basic bibliographical details of all seed plants, ferns and fern allies. Its goal is to eliminate the need for repeated reference to primary sources for basic bibliographic information about plant names. The data are freely available and are gradually being standardized and checked. IPNI will be a dynamic resource, depending on direct contributions by all members of the botanical community.

    IPNI is the product of a collaboration between The Royal Botanic Gardens, Kew, The Harvard University Herbaria, and the Australian National Herbarium

  51. Iris Thu, 07/15/2010 - 14:46

  52. JUICE Thu, 10/18/2007 - 13:04

    JUICE Determine species response curves on environmental gradients, allowing the determination of species optimum and also niche width (tolerance), and identifying species as generalist or specialist.

  53. LIAS – A Global Information System for Lichenized and Non-Lichenized Ascomycetes Tue, 11/10/2009 - 10:04

    LIAS is a multi-authored information system for the collection and distribution of descriptive and other biodiversity data on lichens and non-lichenized ascomycetes. The goal is
    * to provide a working space for cooperation and collaboration of experts on ascomycetes in the Internet
    * to establish a multi-authored worldwide database on descriptive data of all ascomycetes
    * to design user-friendly web tools for an easier access and remote editing of database records via Internet
    * to offer a online database system for multiple usage and therewith dissemination of expert knowledge especially by providing public access to database generated identification keys and natural language description of ascomycetes
    * to promote the gathering, furnishing and administration of data by experts in a standard database system which allows an information deposit for individual use only (e. g. for revision) and – after agreement – the public access to the data via Internet
    * to promote common standards on descriptive data connected with taxonomic names of ascomycetes to facilitate interoperability and data exchange
    The vision of LIAS is to establish a non-commercial global information system of advanced technology where published biodiversity data of all ascomycetes are joint in a multi-authored database and used for the most sophisticated queries.

  54. Linnaeus II v2.6 Fri, 11/30/2007 - 16:40

    Linnaeus II is an innovative multifunctional research tool for systematists and biodiversity researchers, facilitating biodiversity documentation and species identification.

    Linnaeus II was developed by ETI BioInformatics at the University of Amsterdam, the Netherlands. The software package, available for both Windows and Mac OS X, allows the creation of taxonomic databases, optimizes the construction of easy-to-use identification keys, expedites the display and comparison of distribution patterns, and promotes the use of taxonomic data for biodiversity studies.

    The software can also be used to publish completed information systems on CD-ROM / DVD-ROM or make them available on the Web.

  55. Linnaeus II v2.6 Fri, 07/16/2010 - 07:35

  56. LoLA. Library of Location Algorithms Thu, 10/18/2007 - 13:10

    LoLA is designed as a software system comprising the algorithmic methods known in location planning. LoLA consists of a GUI (graphical user interface), a text based interface, and a programming interface which is designed to enable the users of LoLA to write their own C++ programs using algorithms from the LoLA -libraries.

  57. Low Fee Payday Loan - Your Way Out of Your Miseries Sat, 07/24/2010 - 12:52

    Low Fee Payday Loan - Your Way Out of Your Miseries

  58. Lucid v3.5 Fri, 07/16/2010 - 14:49

  59. Lucid v3.4 Fri, 11/30/2007 - 16:39

    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.

  60. Lucid3 - On-Line Player Fri, 02/20/2009 - 15:32

    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.

  61. Lysandra v2.1 Tue, 05/22/2007 - 09:45

    Lysandra is a software for creating keys and database on different groups of living organisms.

  62. Mandala Mon, 07/19/2010 - 09:09

  63. Mantis v2.0.1 Tue, 07/13/2010 - 09:07

    Mantis is a biological database manager that features the ability to store taxonomic and specimen data, images and sounds, and it has built in managers of citations, specimen loans, and addresses. It has been designed by a practising taxonomist, for taxonomists. It is also a tool for conservationists who want to keep tract of species distribution or create simple identification tools. The emphasis of its design is on quick data entry and painless exploration of data. Mantis has a number of tools that facilitate species description, generation of taxonomic catalogues, or mapping of species distribution. It allows users to store an unlimited number of links to external files, such as PDF's, images, or sounds.

  64. Maxent v2.3.0 Thu, 10/18/2007 - 13:10

    Maxent is a free software based on the maximum-entropy approach for species habitat modeling. This software takes as input a set of layers or environmental variables (such as elevation, precipitation, etc.) and produces a model of the range of the given species. It uses species georeferenced occurrence locations ( presence-only data) which makes it very useful for taxonomists.

  65. Meka v3.10 Wed, 07/09/2008 - 14:00

    MEKA is an interactive Multiple-Entry Key Algorithm to enable rapid identification of biological specimens. Earlier versions of the program used a command-line interface. The version offered here is the first version developed to run under Windows. MEKA is controlled by mouse clicks; no text is entered. This approach allows very rapid access to program functions.

    The user picks character states that are present in the specimen from a list of possibilities. As the character states are scored by picking them, MIKA eliminates taxa that no longer match the list of scored character states. Different windows display different aspects of the underlying data base. As the identification progresses the windows are updated automatically. An index screen makes it easy to find and score particular classes of character states. MEKA does not lead the user in a fixed stepwise progression through a series of questions. Instead, the user can perform identifications by scoring character states in any order. This makes it possible to identify specimens that are much more fragmentary than is possible with dichotomous keys.

  66. Melastomataceae.Net Tue, 11/10/2009 - 10:10

    Melastomataceae occur in all tropical biomes, are abundant, ecologically important, and comprise many horticulturally important species. The family comprises an estimated 3,000 "good" species in the Neotropics, 240 in Africa, 230 on Madagascar, and about 1,000 in Asia. One genus, Rhexia, is endemic in North America. The sister clade of Melastomataceae, Memecylaceae, comprises 500 species, most of them in the paleotropics. The site Melastomataceae.Net will present information on the biodiversity of these two families by providing a portal to open-access databases, starting with MEL names. MEL names is a service for accessing the ca. 13,278 names of Melastomataceae and Memecylaceae with information on recognized species, synonymous names, and literature; MEL occurrence will deliver data on distribution of species and genera. The project was funded by a ECAT seed money award given by GBIF International 2005. The IT infrastructure is based on that developed for LIAS with the underlying database application DiversityTaxonNames as part of the Diversity Workbench framework.

  67. MorphoBrowser Thu, 10/18/2007 - 13:12

    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.

  68. Morphometric Software at Suny Stony Brook Thu, 10/18/2007 - 13:14

    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. Note: Windows programs can sometimes be run using emulators on other platforms (e.g., Wine on Linux of Connectix Virtual PC on a Mac).

  69. NaviKey v5.0 Fri, 11/06/2009 - 12:51

    NaviKey is a Java applet and application for accesssing descriptive data coded in DELTA format and has been implemented as:

    • a Java applet providing the contents of DELTA files (see example with the DELTA sample data files)
    • a stand-alone Java application for accessing DELTA files or PostgreSQL versions of DiversityDescriptions databases, respectively
    • a module ("plug-in") of the Java-based Diversity Navigator database client for accessing DELTA files or PostgreSQL versions of DiversityDescriptions databases, respectively

     

     

  70. Omeka v1.2.1 Fri, 07/16/2010 - 08:54

    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.

  71. OpenModeller. Fri, 10/19/2007 - 09:10

    The OpenModeller project aims to provide a flexible, user friendly, cross-platform environment where the entire process of conducting a fundamental niche modeling experiment can be carried out. The software includes facilities for reading species occurrence and environmental data, selection of environmental layers on which the model should be based, creating a fundamental niche model and projecting the model into an environmental scenario. A number of fundamental niche modeling algorithms are provided as plug-ins, including GARP, Climate Space Model, Bioclimatic Envelopes, and others.

  72. PaleoTax v2.3.1 Tue, 07/13/2010 - 09:19

    PaleoTax is a database management system to record taxonomic, geographic and stratigraphic data in biology and palaeontology and dedicated to taxonomists. It allows users to give a complete overview on the literature, taxa, localities, stratigraphy, material etc. of one field of research (as a family, an order or a phylum). Instead taking data from the literature, sample data or field observations can be recorded. Recorded data can be assessed or exported as RTF or HTML document.

  73. Pandora Fri, 10/19/2007 - 09:11

    PANDORA is a database system for taxonomic and biodiversity research projects, such as floras or monographs.

  74. Pickey vbikey-6 and bikey-7 Wed, 01/16/2008 - 16:01

    PICKEY (Pictured Interactive Computerized biological KEY) is an interactive multi-entry polychotomous key for identification of organisms by intensive use of images. PICKEY is a most user-attractive part of the package BIKEY, which include a large set of programs for creation, analysis and subsequent perfection of computer keys, the initial information for this programs is stored in the form of data bases of most widespread and accessible format DBF for systems FoxPro, dBASE, FoxBase, Clipper, etc.

  75. Procite v5 Thu, 05/24/2007 - 11:13

    Search the Internet for References Search PubMed and Internet libraries worldwide from ProCite. Export references directly from Web of Science, Current Contents and Discovery Agent. Build your personal reference collection from hundreds of diskette, CD-ROM, Online and Web databases – reduce data entry. Manage Your References Organise your data using standard Windows and Macintosh navigational tools in ProCite. Link to the World Wide Web and capture Web pages into your ProCite database. Locate references in seconds with powerful searching options, such as contains, empty/not empty and more. Save search expressions and re-use them later. Create reference groups to identify a specific subset of a database. Use seven pre-defined sorting options or create your own. Edit records individually or globally. Customise your reference list display – even preview a formatted reference. Create Instant Bibliographies ProCite offers the most flexible and powerful way to cite references within your word processor. Format bibliographies for hundreds of journal styles, or create your own. Revise your manuscript as many times as needed – all within your word processor. Use subject lists to present data organised by author, keyword or any other field. Share References on a Network Organise collections for a group of users ProCite is also available as a network program. The network program is licensed based either on the number of workstations or on the number of concurrent accesses to the program.

  76. Quantum GIS Mon, 11/24/2008 - 13:24

    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. QGIS lets you browse and create map data on your computer. It supports many common spatial data formats (e.g. ESRI ShapeFile, geotiff). QGIS supports plugins to do things like display tracks from your GPS. QGIS is Open Source software and its free of cost (download here). We welcome contributions from our user community in the form of code contributions, bug fixes, bug reports, contributed documentation, advocacy and supporting other users on our mailing lists and forums. Financial contributions are also welcome.

  77. R-sig-Geo -- R Special Interest Group on using Geographical data and Mapping Fri, 10/19/2007 - 09:13

    A mailing list for discussing the development and use of R functions and packages for handling and analysis of spatial, and particularly geographical, data. The list also covers mapping and cartographic issues, and interfaces between R and geographical information systems.

  78. Rachis v0.0.36 Tue, 05/22/2007 - 12:17

    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.

  79. Recorder 6 v6.14.5 Mon, 07/12/2010 - 08:14

    Recorder 6 is a powerful, standards based tool for collection and management of biological records. It includes data entry, reporting and distribution mapping functionality. The NBN (National Biodiversity Network) data model used is well documented, open and accessible. Recorder 6 is designed to be a flexible tool. It can collate records coming from many different sources. Once records are held within a copy of Recorder 6 they can be edited, shared and managed, whilst, retaining a transparent link back to their original identity. A record may be safely shared with other copies as tools are in place to ensure that duplication of data does not occur and that any edits done do not obscure the original record.

  80. References Fri, 10/17/2008 - 10:47

  81. ResNet and Surrogacy Fri, 10/19/2007 - 09:16

    ResNet is a place prioritization software package designed to select places according to their biodiversity content. Surrogacy allow to test if environmental surrogates can represent biodiversity components.

  82. S-Distance Fri, 10/19/2007 - 09:17

    S-Distance is a standalone Spatial Decision Support System, mainly focused on location-allocation analysis. While still being in an early stage, the software is functional and has been tested on many classical Operation Research instances, as well as on several real-world problems. S-Distance is currently being created using Microsoft Visual Basic 6.0 and is intended to be used for educational purposes only.

  83. SAGA GIS Thu, 05/31/2007 - 11:38

    SAGA – System for Automated Geoscientific Analyses- is a hybrid GIS software. The first objective of SAGA is to give (geo-)scientists an effective but easy learnable platform for the implementation of geoscientific methods, which is achieved by SAGA's unique Application Programming Interface (API). The second is to make these methods accessible in a user friendly way. This is mainly done by the Graphical User Interface (GUI). Together this results in SAGA's true strength: a fast growing set of geoscientifc methods, bundled in exchangeable Module Libraries.

    SAGA is written in the widespread and powerful C++ programming language and follows an object oriented approach. Moreover it relies on the GNU Public License, which means it is an open source project. All this designates SAGA to be a first choice tool for everybody who works in the field of geosciences, in particular for those who want transparent state of the art methods.

  84. SAM. Spatial Analysis in Macroecology Fri, 10/19/2007 - 09:21

    SAM is a compact but robust computer program designed as a package of statistical tools for spatial analysis, mainly for applications in Macroecology and Biogeography. SAM runs under Microsoft Windows as a user-friendly, menu-driven, graphical interface computational program. SAM offers a wide spectrum of statistical methods currently used in Surface Pattern Spatial Analysis.

  85. SEXTANTE Fri, 10/19/2007 - 09:22

    SEXTANTE is the GIS system developed by the government of Extremadura, for satisfying its own needs and continuing the line of technological advance that has been followed in the last years. You can visit it here : http://www.linex.org/).

  86. SITATION. Facility Location Software. Fri, 10/19/2007 - 09:23

    The SITATION software solves several classes of location problems running under Windows 95. This program as others are fully described in the book Network and Discrete Location: Models, Algorithms, and Applications.

  87. SLIKS v2.1 Mon, 05/21/2007 - 14:51

    SLIKS is a small Javascript program that I developed to facilitate the use of interactive keys. It runs over the web or locally on your machine.

  88. SPADE. Species Prediction And Diversity Estimation Fri, 10/19/2007 - 09:24

    SPADE estimates species richness, shared species richness and various diversity and similarity indices, based on different types of sample data from one or two communities.

  89. SPATSTAT Fri, 10/19/2007 - 09:25

    A R library for the statistical analysis of spatial point patterns.

  90. Species ID Wed, 04/14/2010 - 16:09

    Species-ID is dedicated to species descriptions and identification keys. It supports projects creating keys as well as projects creating species identification software.

  91. SpeciesBase Fri, 07/16/2010 - 14:25

  92. Specify 6 v6.2.01 Mon, 07/12/2010 - 08:51

    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.

  93. Specify Software Project v5.1 Wed, 09/26/2007 - 13:42

    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.

  94. SPECRICH v1.0 Fri, 10/19/2007 - 09:27

    SPECRICH Computes species richnessor total number of species from empirical species abundance distribution data.

  95. spsurvey Fri, 10/19/2007 - 09:29

    A R library useful for site selection and spatial survey designs.

  96. SYNTHESYS NAD: Providing itinerary related datasets and tools (for integration, visualisation and quality check) Fri, 10/19/2007 - 09:30

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

  97. SysTax Wed, 07/14/2010 - 14:43

  98. TDWG World Geographical Scheme - GIS Shapefiles v2.0 Fri, 05/25/2007 - 11:14

    TDWG World Geographical Scheme for Recording Plant Distributions

    The International Taxonomic Database Working Group's world geographical scheme for recording plant distributions can be downloaded from this website as ArcView shape files for use in GIS. This is the first release of these dataset so there may be some errors. Please send any corrections to J.Moat@rbgkew.org.uk. Please see the metadata for more information on these datasets (contained with the zip file metadata.xml and metadata.txt). Also please read the disclaimer and copyright before downloading this data.

  99. The British bumblebee identification guide Thu, 01/22/2009 - 15:10

    This British bumblebee identification guide is an easy-to-use key designed to help you identify bumblebees by looking at the insects' colour patterns. It is available as Flash and HTML version.

  100. The Electronic Field Guide (EFG) Project v1.0.0.1 Wed, 01/16/2008 - 16:02

    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.

  101. The IT Center of the Staatliche Naturwissenschaftliche Sammlungen Bayerns - Workshops Tue, 11/10/2009 - 10:21

    The IT Center of the Staatliche Naturwissenschaftliche Sammlungen Bayerns (SNSB) is organising IT workshops, e.g. Diversity Collection workshops.

  102. The Mycology.Net Tue, 11/10/2009 - 09:57

    The Mycology.Net has been established as a non-commercial scientific data platform for linking mycological and lichenological websites in a structured way.
    The Mycology.Net aims to
    * provide access to online data on the biodiversity of fungi, including lichens, especially their taxonomy, distribution, phylogeny, descriptive characters, collections, literature etc.
    * inform about mycological institutions, journals, databases (link sections) and persons engaged in mycology
    * reach scientists all over the world and invite them to use the platform and to help improving the quality and quantity of data
    * maintain a discussion forum for mycological subjects and the further development of the platform itself

  103. The Phycology.Net Tue, 11/10/2009 - 10:02

    The Phycology.Net has been established as a non-commercial scientific data platform for linking phycological websites in a structured way. The Phycology.Net aims to
    * provide access to online data on the biodiversity of algae, especially their taxonomy, distribution, phylogeny, descriptive characters, collections, literature etc.
    * inform about phycological institutions, journals, databases (link sections) and persons engaged in phycology
    * reach scientists all over the world and invite them to use the platform and to help improving the quality and quantity of data
    * maintain a discussion forum for phycological subjects and the further development of the platform itself
    * provide access to online data on the biodiversity of algae, especially their taxonomy, distribution, phylogeny, descriptive characters, collections, literature etc.
    * inform about phycological institutions, journals, databases (link sections) and persons engaged in phycology
    * reach scientists all over the world and invite them to use the platform and to help improving the quality and quantity of data
    * maintain a discussion forum for phycological subjects and the further development of the platform itself

  104. The R Project for Statistical Computing Fri, 10/19/2007 - 09:31

    R is the most complete and freely available software for statistical computing and graphics allowing the accomplishment of Generalized Linear Models, Generalized Additive Models, Classification and Regression Trees or Neural Networks models.

  105. Tolkin Wed, 07/09/2008 - 14:00

    TOLKIN is an on-line research tool to be shared among several laboratories working remotely. It is an information management and analytical web application to provide informatics support for phylodiversity and biodiversity research projects. As a web-based application, TOLKIN is able to support collaborative projects by providing shared access to a variety of data on voucher specimens, taxonomy, bibliography, morphology, DNA samples and sequences.

  106. TROPICOS Thu, 01/17/2008 - 17:37

    W3TROPICOS provides new and improved access to the Missouri Botanical Garden's VAST nomenclatural database and associated authority files. In this release (rev. 1.5), the following information is provided when present (* indicates a hypertext link to additional information about a name or reference):

     

    Names data
    Plant name and authors
    Group and family placement
    Place and date of publication
    Type information
    *Basionym, with place and date of publication
    *Next Higher Taxon, with place and date of publication
    *Other uses of this name
    *Synonyms of this name, and *References for the alternate usage
    *Homonyms and *Infraspecific names for species
    Reference
    Author(s) of the publication
    Date of publication
    Title of the article
    Journal or book title
    Volume and page numbers
    Keywords

  107. UBio NameBank Thu, 01/17/2008 - 17:40

    NameBank is a registry for all recorded taxon names.

    NameBank is a biological name server. It stores and serves NameBankIDs via Life Science Identifiers, a persistent and distinct identifier. Each NameBank LSID returns a NameBank object which contains information about the NameBank record.

     

    It stores and qualifies recorded taxon names, providing an index for all name-annotated content. NameBank serves as a foundational layer for a name-based informatics infrastructure.

     

    The basic unit of NameBank is the NameBank record which is referenced by a unique and persistentNameBankID. NameBank records are like index cards, recording basic metadata about specific distinct name string concepts. NameBank records form reconcilation groups based on objectively derived inter-relationships. 

  108. WhyWhere Fri, 10/19/2007 - 09:32

    WhyWhere is another modeling software similar to GARP that can detect strong associations with virtually any distribution type because it does not require assumptions about the form of the distributions such as gaussian, sigmoidal, exponential, etc, as an input.

  109. World Biodiversity Database Wed, 07/09/2008 - 14:04

    The World Biodiversity Database currently consists of 21 separate projects. All projects (except the cranefly database) were generated using the Web Publisher facility of ETI's Linnaeus II software. Click a project title for more information.

  110. Ws2m. Software for the measurement and analysis of species diversity Fri, 10/19/2007 - 09:33

    Ws2m estimate the number of species in a collection of identified individuals generating a series of statistics for a randomly ordered data set. Ws2m uses a large (and user-controllable) variety of estimators to produce the estimates. It also reports the number of individuals used to that point and the actual number of species so far obtained in the collection. It can report species-abundance distributions and Jaccard indices.

  111. X:ID v 0.66 Mon, 05/21/2007 - 12:07

    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.

  112. Xper2 v2.0 Fri, 11/06/2009 - 14:51

    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).

  113. XPER² in action - Video tutorial on XPER² Mon, 12/07/2009 - 16:30

    Short silent video of presentation of the XPER² software (management of taxonomic descriptions and interactive identification keys).

  114. ZONATION Fri, 10/19/2007 - 09:35

    Zonation is a reserve selection framework for spatial conservation planning. It identifies areas important for retaining habitat quality and connectivity for multiple species, indirectly aiming at species’ long-term persistence. Zonation can be used for various purposes such as spatial conservation prioritization, conservation assessment, reserve selection and reserve network design.

  115. ZooBank Thu, 01/17/2008 - 17:41

    The scientific names of animal species are crucial to effective global communication about biodiversity, and hence its use and conservation. Without broad agreement on the name of a disease-bearing microbe, vital food species, or threatened animal, we can't even begin to combat, exploit or conserve them. So, in scientific language, humans are Homo sapiens and honeybees are Apis mellifera; and this is true all over the world.

    The universal acceptance and adoption of a system for naming animals is an incredible achievement for mankind, and started in 1758 with the publication of the 10th edition of Systema Naturae by the Swedish biologist Carolus Linnaeus. Exactly 250 years after the very day that the ICZN Code fixes the official start of scientific zoological nomenclature (January 1, 1758), the ZooBank Registration website was officially launched.

    The ZooBank Registry is still very-much a work in progress, and will likely remain so over the course of 2008-2009. The development process is intentionally gradual, to allow the creation of a solid foundation with input and support from as much of the active zoological taxonomy community as possible. Several documents outlining various aspects of the history and development of ZooBank are available here.

    The ICZN is especially grateful to Thomson Scientific, owners of the Zoological Record, for their help and assistance in creating an early version of ZooBank based on the Index to Organism Names. As ZooBank continues to grow during its early development period, you may wish to link to the current version of the Index to Organism Names - a much more comprehensive listing of zoological nomenclature, cross-linked to relevant literature. ICZN looks forward to a long and mutually advantageous relationship with Thomson Scientific.

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