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Open Source Software and Scripts

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maskRangeR is an R package that post-processes species distribution models (SDMs) for estimating a species’ current range. Among other functionalities, it spatiotemporally matches in-situ observations of a species’ occurrence to remote sensing (e.g. MODIS-derived) products to derive accurate metrics important to species’ tolerances, and uses them to refine species distribution model predictions and estimate the species’ current range, e.g. accounting for land cover change. In conjunction with a yet-unnamed second package that will calculate Essential Biodiversity Variables, these R packages will be implemented into Wallace, an R-based platform for reproducible modeling of species niches and distributions.
Maxent
Maxent software for modeling species niches and distributions applies a machine-learning technique called maximum entropy modeling. From a set of environmental (e.g., climatic) grids and georeferenced occurrence localities, the model expresses a probability distribution where each grid cell has a predicted suitability of conditions for the species.
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The Event Visualization Tool (eVis) has been developed to easily view geocoded photos associated by attributes to features in the QGIS mapping environment. eVis has been developed in an adaptable way to allow for maximum usage.
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The Perpendicular Distance Calculator is a platform-independent Java application that implements a powerful suite of spherical functions for processing observations made during standard line transect surveys.
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The Geographic Distance Matrix Generator is a platform-independent Java application that implements the same powerful suite of spherical functions as the Perpendicular Distance Calculator to compute all pairwise distances from a simple list of geographic coordinates.
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Random Forest R scripts and guides: a collection of scripts written in the R programming language and guides that explain how the scripts work. R scripts and guides are maintained in a GitHub repository organized by application inside the “Downloads” directory. Currently, there are three applications: pixel-by-pixel classification, segmentation classification, and percent cover (continuous field) mapping. To download an R script (.R file extension) or guide (.pdf file extension) right-click on the link so you can save it on your computer. These R scripts have been integrated into the Rstoolbox package for R which is available on the CRAN.