Software

The Bounding Box Helper written by Connor Jenkins in support of Selena Johnson's diver-based Structure-from-Motion processing workflow for precise application of bounding box dimensions between related chunks in Agisoft Metashape for extraction of identical data areas. The Bounding Box Helper is designed for two primary uses: to facilitate precise manipulation of bounding box dimensions...

Science-based grazing management is crucial to preserving and improving rangeland productivity and sagebrush ecosystem health. By adjusting the timing, duration, frequency, and intensity of grazing, managers can contribute to ecosystem services such as fuel reduction and invasive annual grass control. They can also utilize rotational grazing to minimize or mitigate impacts on sensitive...

Birds were surveyed using time-to-detection count methods across Uganda from 1985 to 2011. This code analyzes these data (from the associated data release) to test for relationships between tree cover, time (year), and species richness and occupancy.

This release introduces the ocelote package. The package includes routines to run assessments, manage assessment metadata, and upload assessments to Amazon S3 and ScienceBase. The package consists of the following commands: * authenticate s3: Acquires, tests, and stores credentials for S3 uploads * authenticate sciencebase: Acquires, tests, and stores credentials for ScienceBase uploads...

This is a permanent record of version 1.0.0 of the PWFDF data specification. The spec describes: the organization of assessments on ScienceBase, ScienceBase metadata unique to the collection, and the files, data, and metadata contained within individual assessments.

This is repository contains all publicly-released code and data supporting the Southern Rocky Mountains boreal toad decision support tool, which was developed as a part of a North Central Climate Adaptation Science Center-funded project entitled “A framework for guiding management decisions for amphibians in an uncertain future”, by Dr. Amanda M. Kissel (USGS), Dr. Erin Muths (USGS), Mae...

Using a 36-year dataset of smallmouth bass length-at-age, we assess the effect of population density, average critical period temperature, and average spring flow rate on early life growth rate. We also looked at how a disease outbreak in 2004 impacted early life growth rates in reaches with and without the disease. The code in this release provides the R scripts to perform this analysis...

This repository centralizes R code used to examine habitat selection and survival of greater sage-grouse (Centrocercus urophasianus) during multiple seasons and life stages, utilizing data collected from a wide range of study sites in Nevada and California, USA. The R script "selection_model.R" provides code for a GLMM framework with regularization within a Bayesian modeling environment...

NHM-Assist is a collection of python workflows presented in Jupyter notebooks for evaluating, running and interpreting National Hydrologic Model (NHM) domains using pywatershed. NHM-Assist allows users to: evaluate hydrofabric element connections such as hydrologic response unit connections to streamflow segments, segment routing order, and gage placement accuracy; display NHM domain...

This code release fits a Bayesian logistic regression model to predict the probability that stream segments flowing through National Park lands in Alaska are considered navigable, based on slope (drop in elevation / segment length) and Strahler stream order, an ordinal metric with values ranging from 1-6. The model uses existing navigability determinations for a subset of stream segments...

There exist at least two R packages for analysis of compositional data (Templ and others, 2023; van den Boogaart, 2024). Both packages have many functions for various types of analysis. Nonetheless, a package that performs just the computations for compositional data is needed for at least two reasons: First, such a basic package can be incorporated into other packages that perform...

This software automatically generates synthetic elevation checkpoints suitable for assessing the vertical error on remotely-sensed topographic data such as Digital Elevation Models (DEMs), Digital Surface Models (DSMs), and point clouds. The software ingests a user-provided timeseries of DEMs, a road polyline dataset, and an impervious surface classification in order to place synthetic...