Software

An R-package for the analysis of long-term changes in water quality and streamflow, including the water-quality method Weighted Regressions on Time, Discharge, and Season (WRTDS).

The Gage Statistic (GageStats) Services were developed to provide gage characteristics and streamflow statistics to support the StreamStats application via RESTful principles. The StreamStats application uses GageStats Services to display the gages and related gage pages. These services provide U.S. Geological Survey developed and published gage characteristics such as drainage area or mean basin

This R package was developed to help the USFWS understand the effects of wind turbine mortality and WNS on the Indiana bat. The model has been described in a peer-reviewd (and open access publication). The package includes both a GUI and command line interface. The GUI only works for Myotis spp., although the command line tool has been expanded for two other genera of bats: Lasiurus spp. and Pipis

This study continues our investigations into the effects of lampricides on mussels by extending research into potential effects on behavioral and reproductive endpoints on the mussel plain pocketbook (Lampsilis cardium). We hypothesized that TFM and TFM:NIC would reduce the viability of free glochidia in a dose-dependent manner, that older glochidia would be more sensitive than younger glochidia,

This software release contains Python functions for weighting multiple non-independent estimates of a variable. Weighting is determined by the standard error of prediction of each estimate and the correlation between the estimation methods. The methodology for weighting estimates from either two or three different methods is described in Chase and others (2020). A function is also included to han

Matching climate envelopes allows people to examine how potential invasive species may match habitats. This repository contains code for using the climatchR package for high-throughput calculations of climatch scores for species using GBIF data. Climatch is based upon the climatch algorithm as implemented through the climatchR package.

This repository contains code for the analysis of Wamboldt JJ, Nelson JE, Thomas LM, Steiner JN, Hebert JL, Erickson RA, Putnam JG. Quantitative method development to determine feed consumption using a dye. North American Journal of Aquaculture The purpose of the repository is to document what analysis was run for publication and is intended for an archive rather than a production or development

Hyperparameter optimization approaches were applied to improve performance and accuracy of groundwater flow models. Freely available new software, NWTOPT, is described that uses Tree of Parzen Estimators (TPE) and Random Search optimization algorithms to optimize MODFLOW-NWT’s solver settings. We ran 3500 trials on a steady-state and transient model. To quantify the performance of candidate solver

This is an R-package designed to create water-quality reports for either U.S. Fish and Wildlife Service (FWS) wildlife refuge boundaries, or user-specified Hydrologic Unit Code (HUC) boundaries (8 or 10 digit HUC services are available). Functions are included to take the user's geographical request, and find the sites that measure water-quality parameters, and retrieve that data. A workflow walks

The ToxMixtures R-package includes a set of functions to analyze, visualize, and organize measured chemical concentration data as it relates to chemical mixtures. ToxMixtures combines outputs from the R-package toxEval with open access sources on molecular biology to provide information on potential biological effects of chemicals detected in environmental matrices. To use ToxMixtures, the user wi

The repository contains code to analyze the differences in model results when nested design structures differ. The code for this project assumes the reader is familiar with R, nested designs, and mixed effects linear modeling.

occStan is an R package (R Core Team 2021) providing a collection of occpuancy Bayesian models written in the Stan language as called through RStan (Stan Development Team 2021). The package is a USGS software software release. The purpose of the package is to document these models for use in USGS projects and allow easy discrimination. The package assumes the user is familiar with R and occupancy