Software

This release introduces the core statsgo-cog package. This package provides functions to convert soil data fields in the STATSGO archive from shapefiles to cloud optimized GeoTiffs (COGs). The package contains 3 main commands: * download: Downloads the STATSGO shapefile archive from ScienceBase * merge: Merges the shapefile archive into a single shapefile spanning all of the continental...

The toxEval R-package includes a set of functions to analyze, visualize, and organize measured concentration data as it relates to https://www.epa.gov/comptox-tools/toxicity-forecasting-toxcast or other user-selected chemical-biological interaction benchmark data such as water quality criteria. The intent of these analyses is to develop a better understanding of the potential biological...

Lampreys are an ancient group of fishes with complex life histories. We created a life cycle model that includes an R Shiny interactive web application interface to simulate abundance by life stage. This will allow scientists and managers to connect available demographic information in a framework that can be applied to questions regarding lamprey biology and conservation.

This Python-based toolbox reads media (photo, audio, video) file locations, creates a metadata template CSV file, and uses the metadata template CSV file to embed metadata into the media files themselves. Created to function exclusively in ArcGIS Pro, the toolbox provides a GUI (graphical user interface) interface to complete functions without the need for Python coding or scripting...

The EnergyStorageUQ repository of R and JAGS code provides JAGS models and an R workflow for analyzing energy storage capacity of gas reservoirs using material balance methods embedded in statistical models. The code contains tools for a workflow that includes fitting models, making predictions with uncertainty through Monte Carlo simulation, and visualizing the resulting material...

This repository contains code to fit a static occupancy model to time-to-detection data for foothill yellow-legged frogs (Rana boylii). This repository specifically contains code to reproduce analyses in: Halstead, B.J., Kleeman, P.M., and Rose, J.P., 2024, Using structural causal modeling to infer the effects of wildfire on foothill yellow-legged frog occurrence: Journal of Fish and...

The aim of this software is to perform the simulations that evaluate the alternatives associated with the National Elk Refuge Bison and Elk Management Plan. In particular, it produces results associated with bison population dynamics, harvest, and conflict potential. For additional detail on the methodology and case study, please refer to: Cook, J.D., McEachran, M.C., Cotterill, G.G...

Package used to store and process data from the Multilevel Monitoring System (MLMS) used in wells within the U.S. Geological Survey (USGS) aquifer-monitoring network at the Idaho National Laboratory (INL) in Idaho. Supported by the U.S. Department of Energy (DOE), the USGS collected discrete measurements of hydraulic head at various depths from wells in the eastern Snake River Plain...

This is supporting code for the paper "Challenges and opportunities for data integration to improve estimation of migratory connectivity" by Jeffrey A. Hostetler, Emily B. Cohen, Christen M. Bossu, Amy L. Scarpignato, Kristen Ruegg, Andrea Contina, Clark S. Rushing, and Michael T. Hallworth in Methods in Ecology and Evolution. It allows the reader to run the simulations and case studies...

Catfishes are opportunistic feeders that are among the world's worst invasive species. Flathead catfish Pylodictus olivaris -- a large predatory catfish -- were first detected in the Susquehanna River, Pennsylvania, USA in 2002. Since then, they established a viable and rapidly growing population that is expanding its range throughout the river system. Although the predatory effects of...

This software was used to make derivatives of the features in the NHDPlusV2 geospatial dataset for use in hydrologic model applications. It is not intended for users to deploy/use and may produce unexpected results outside the workflow and environment in which it was implemented. For users seeking to deploy a version of this software, please see https://github.com/noaa-owp/hydrofab. The...

This repository is a code release to create and analyze simulated datasets to represent a tag-return study for the purposes of estimating annual removal rates of an invasive fish. The simulated scenarios cover ranges of parameters such as the number of fish tagged per year, magnitude of annual harvest rate, length of simulated study, probability of tag retention, probability of tag...