Skip to main content
U.S. flag

An official website of the United States government


An official USGS software project is code reviewed and approved at the bureau-level for distribution.

Filter Total Items: 583

Comparing datasets by surveillance method using spatial models

This software compares statistical methods to model habitat risk of CWD in white-tailed deer in Pennsylvania using Bayesian hierarchical models in R-INLA and compares these results with model output from WinBugs. The software also uses R-INLA with the Stochastic Partial Differential Approach (SPDE) to compare different surveillance methods to model CWD in relation to habitat features and age and s

Application of Spatially Misaligned Regression Model to Assess Impacts of White-Nose Syndrome

Code release for a statistical framework that provides a solution to overcome institutionally siloed monitoring activities in order to inform species conservation across large landscapes. Stan code and documentation to provide access and adaptation for other wildlife disease applications.

GRAPES.jl - GRAph Prediction of Earthquake Shaking in Julia (Version 1.0.0)

GRAPES.jl is a Julia-language code for earthquake early warning. GRAPES.jl implements the GRAph Prediction of Earthquake Shaking (GRAPES) algorithm using graph neural networks. The GRAPES.jl package provides code for EEW ground motion predictions.

REDPy - Repeating Earthquake Detector in Python (Version 1.0.0)

REDPy (Repeating Earthquake Detector in Python) is a tool for automated detection and analysis of repeating earthquakes in continuous data. It works without any previous assumptions of what repeating seismicity looks like (that is, does not require a template event). Repeating earthquakes are clustered into families based on waveform similarity via cross-correlation across multiple stations. All d

Population Viability Model for Western Pond Turtle

The code herein uses a triple loop structure to simulate a spatially implicit stage structured matrix model for two species of western pond turtle with parametric uncertainty and temporal stochasticity.

digger: A python package for D-Claw model inputs

Digger is a python package that provides a number of pre- and post-processing tools for working with the D-Claw model.

R code for calculating imperilment of freshwater fish with a Bayesian belief network

This R script is reproduces a Bayesian belief network built within the propriety software program, Netica. The R- and Netica-based belief networks were used in Dunn and Schumann et al. (in press), which presents an approach for calculating imperilment of freshwater fishes.


The goal of algaeClassify is to facilitate the analysis of taxonomic and functional trait data for phytoplankton.

Population Viability Model for Spot-tailed earless lizard

Code for simulating Spot-tailed earless lizard populations under habitat loss and road mortality threats in central Texas

Predicting fish responses to climate change using a joint species, spatially dependent physiologically guided abundance model

Predicting the effects of warming temperatures on the abundance and distribution of organisms under future climate scenarios often requires extrapolating species-environment correlations to thermal conditions not currently experienced by a species or to temperatures that exceed the range of observed data. For poikilotherms, incorporating species’ thermal physiology to inform extrapolations under

Population genetic structure of white-tailed deer using microsatellites i the Mid-Atalntic region

Results of 11 microsatellites for white-tailed deer collected in Maryland, New York, Ohio, Pennsylvania, and Virginia from 2014 to 2022 for genetic analysis. In this project we assessed genetic structure using different analyses, and evaluated the performance of assignment tests to correctly match deer to origin (defined as genetic cluster, state or physiographic province). This repository include


Estimating High Resolution Multi-Cropped Irrigated Land Use Using a Pesticide Use Reporting Database in California Estimating the amount of water needed for agriculture is vital for food and water security. These estimates rely on maps of crop type and acreage that have limited ground-truthing or represent multiple years or regional cropping patterns. In regions where crops change frequently or m