Software | Lifewatch regional portal

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In addition to the online applications LifeWatch is developing and maintaining, a number of open source software packages (mostly R packages) that support biodiversity data analysis. A list of these packages can be found below.

Benthos Ecosystem Quality Index (BEQI)

The Benthos Ecosystem Quality Index (BEQI) is a biological index that will be used assessing the state of the benthos of coastal and transitional waters for the Water Framework Directive.

The software package is available through here.

bioRad

R package for analysis and visualisation of biological signals in weather radar data. The R package is available through GitHub.

bird-tracking

Bird-tracking is a collection of scripts for visualizing data from the bird tracking network.

The scripts are available on GitHub.

bird-tracking-etl

bird-tracking-etl is an R package for UvA-BiTS bird tracking data.

The R package is available on GitHub.

BVMtool

BVMtool is a tool for marine biological valuation mapping.

The software package is available through here.

CPOD_data_analysis_workshop

R scripts used during the LifeWatch Data Analysis Workshop: Cetacean passive acoustic sensor network (October 5th-6th 2017).

The R scripts are available on GitHub.

etn

R package with functions to access and process data from the European Tracking Network (ETN). The R package is available through GitHub.

fish-tracking-data-publication

Fish-tracking-data-publication is an R package for data publication of acoustic fish tracking data.

The R package is available on GitHub.

grofwildjacht

Rshiny app for grofwildjacht. The application is available here.

marinespeed

Marinespeed is an R package for working with the Marine SPEcies and Environmetal Data dataset.

More information about the R package: http://rshiny.lifewatch.be/marinespeed/

The R package is available on GitHub.

niche_vlaanderen

Python package to run the NICHE Vlaanderen model. The Python package is available through GitHub.

OpenSeaLab

R script developed during the EMODnet OpenSeaLab bootcamp (15-18 November 2017). This EU wide tool for identifying suitable areas at sea to farm seaweed is open source and available on GitHub.

pydov

Python package to retrieve data from Databank Ondergrond Vlaanderen (DOV). The Python package is available through GitHub.

pygbif

Python client for the GBIF API. The Python package is available through GitHub.

pywhip

Python package to validate data against whip specifications. The Python package is available through GitHub.

rgbif

The rgbif package gives you access to data from GBIF, were the Research Institute for Nature and Forest (INBO) contributes their biodiversity data. A tutorial illustrates how you can use the package to search and download data from GBIF and how to create and interactive map of the downloaded data. The R package is available through GitHub.

sas-occurrences

Sas-occurrence is an R package for the Seabirds at sea monitoring in the Belgian part of the North Sea.

The R package is available on GitHub.

sdmpredictors

sdmpredictors is an R package from Bio-ORACLE v2.0: Marine Data Layers for Bioclimatic Modelling. The software package is available on GitHub.

taxize

The taxize package allows users to search over many taxonomic data sources for species names (scientific and common) and download up and downstream taxonomic hierarchical information - among other things. The R package is available through GitHub.

 

wateRinfo

The wateRinfo package provides data access to the waterinfo.be data, the data portal provided by the Flemish environmental agency (VMM). Different meteorological, flow and fysico-chemical variables are provided for set of stations.The R package is available through GitHub.

worrms

The worrms package is a R client for the World Register of Marine Species (WoRMS). The R package is available through GitHub.