Software

SEIcarP is an R package (R Core Team 2021) implementing the Spatially Explicit Invasive Carp (SEICarP; sometimes stylize as SEIcarP) population model for the Illinois River. This repository contains the SEIcarP model plus two additional packages required for the main model package to run. These are the SEIcarP Bighead Carp (BH) data (SEIcarPdataBHCP) and the SEIcarP Silver Carp (SV) data (SEIcarPd

This repository contains an example application of the `Meta-IPM` Python package (https://doi.org/10.5066/P9PW673G). The specific application focuses on the Illinois River using existing public data.

This repository contains code to cluster a sample of Mussels based up their metabolic levels via Non-Metric Multidimensional Scaling (NMDS) and distance based-Redundancy Analysis (db-RDA). Mussel sample is broken down and examined by catch location, sex, and species. The code for this project assumes the reader is familiar with R and clustering techniques.

Climate data allow people to examine species distributions and possible distributions. This script takes ERA5-Land climate estimates (https://www.ecmwf.int/en/forecasts/datasets/reanalysis-datasets/era5) for precipitation and lake temperature and processes them to create summary climate layers for use with biological organisms in lakes. This code could be modified to use a different subset of year

This repository contains analysis codes to interpolate missing data from the Upper Mississippi River LTRM dataset.

This repository contains code for the analysis from a study that examined mortality and qPCR detection in 4 groups of fish: an uninfected control group, an infected control group, and two treatment groups. The main goals were to determine if their were differences in mortality and qPCR detection of the parasite among the differing groups. Mortality was addressed using a Generalized Linear Mixed M

This product contains code to analyze a dataset that was collected to compare a LAMP assay and a qPCR assay for Grass Carp in a pond study. This repository contains the RMarkdown and R files used to analyze the data. It was created to allow for reproducible results. The code assumes the user is experience with R, especially the Tidyverse, and Stan.

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