Geospatial

ENM Statistical Workflow (ESW)

The ENM statistic workflow (ESW) allows the computation of the extent and intensity of change in species potential distribution through computation of the differences between two raster layers using the R statistical environment (R Core Team 2013). The difference file is computed from two input files (in this case present projection and 2050 projection). The difference between each corresponding raster cell value is computed and stored in the difference file, regardless of the input files’ geographical extent and origin.

Ecological Niche Modeling (ENM)

The workflow offers an extensible framework for analyzing or predicting the impact of environmental changes on the distribution of biodiversity. Especially in combination with data aggregation workflows like the Taxonomic Data Refinement Workflow (DRW), the ENM workflows facilitate the analysis of species distribution patterns over large geo-temporal, taxonomic, and environmental scales. Examples for applications are studies of species adaptations to climate change, dynamic modeling of ecologically related species, identification of regions with accumulated risk for invasion, potential for restoration, or natural protected areas.

LIAS – A Global Information System for Lichenized and Non-Lichenized Ascomycetes

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

The Phycology.Net

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.

The Mycology.Net

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

Diversity Workbench

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.

Biodiverse

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.

A practical guide to geostatistical mapping of environmental variables

Geostatistical mapping can be defined as analytical production of maps by using field observations, auxiliary information and a computer program that calculates values at locations of interest. Today, increasingly the heart of a mapping project is, in fact, the computer program that implements some (geo)statistical algorithm to a given point data set. Purpose of this guide is to assist you in producing quality maps by using fully-operational tools, without a need for serious additional investments.

DOMAIN

Uses a point-to-point similarity metric (Gower metric) to assign a classification value to a potential site based on its proximity in environmental space to the most similar positive occurrence location. Similarity between the site of interest and each of recorded present occurrence location is calculated by summing the standardized distance between the two points for each predictor variable. The standardization is achieved by dividing the distance by the predictor variable range for the presence sites, equalizing the contribution from each predictor variable. The standardized distance is subtracted from 1 to obtain the complementary similarity.

BioCLIM

BIOCLIM utilizes a boxcar environmental envelope algorithm to identify locations that have environmental conditions that fall within the environmental range recorded for present occurrences. Specifically the minimum and maximum values for each environmental predictor are identified to define the multidimensional environmental box where the element is known to occur. Study area sites that hale environmental conditions within the boundaries of the multidimensional box are predicted as potential sites of occupancy. Uses presence occurrence data only.

 
Software available with DIVA GIS.

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.

EstimateS. Statistical estimation of species richness and shared species from samples

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.

Ws2m. Software for the measurement and analysis of species diversity

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.

SPADE. Species Prediction And Diversity Estimation

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.

EcoSim. Null model software for ecologists

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.

SPECRICH

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

GBIF MAPA

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.

LoLA. Library of Location Algorithms

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.

ZONATION

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.

GeoDa. An Introduction to Spatial Data Analysis

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.

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