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ModelMuse Version 5.2

This version of ModelMuse adds support for MODFLOW-OWHM version 2, SUTRA version 4, and additional packages in MODFLOW 6.

Comparing maximum likelihood and Bayesian methods for fitting Hidden Markov Models to multi-state capture recapture data of invasive Silver Carp in the Illinois River

This repository contains the data, code for modeling and analysis, and publication markdown documents for a comparison of various methods for fitting multi-state models, including maximum likelihood and Bayesian approaches via R.

ModelMuse: A Graphical User Interface for Groundwater Models

ModelMuse is a graphical user interface (GUI) for the U.S. Geological Survey (USGS) models MODFLOW 6, MODFLOW–2005, MODFLOW-LGR, MODFLOW-LGR2, MODFLOW-NWT, MODFLOW-CFP, MODFLOW-OWHM versions 1 and 2, MODPATH, ZONEBUDGET, PHAST, SUTRA 2.2, SUTRA 3.0, SUTRA 4.0,  MT3D-USGS, and WellFootprint and the non-USGS programs MT3DMS and PEST.

Evaluating the effectiveness of joint species distribution modeling for riverine fish communities

Species Distribution Models (JSDMs) allow for accounting for both environmental predictors and species dependencies within a single statistical modeling frameworks. However, it is unclear under what conditions incorporating residual species dependencies (conditional predictions) might outperform predictions made using only environmental information (marginal predictions). Here, we evaluated how a

Landslide Automated Geospatial Processing Software Using a High-Performance Computer

This software contains the data processing for nationwide landslide research described in Mirus et al. 2024, Parsimonious landslide-susceptibility modeling at continental scales: Application for the conterminous United States, Hawaii, Alaska, and Puerto Rico. To perform geospatial processing over the large geographic area, each 1/3 arc-second (10-meter) Digital Elevation Model (DEM) is processed i

Vignette Bayesian Site Occupancy Model Bat Acoustic Data

The purpose of this document is to demonstrate how data collected by the Pacific Northwest Bat Hub, a member of the North American Bat Monitoring Program (NABat), may be used to make inferences about species occurrence. As motivation, we consider occurrence data collected on Silver-haired bats (Lasionycteris noctivagans, LANO) in Oregon and Washington in 2019. In particular, we are interested in t

Conservation Efforts Database Batch Upload Template and User Manual (Cutthroat Trout Recovery Module)

This ArcGIS Pro project template is being provided to the public in support of scientists who wish to upload data to the Conservation Efforts Database (CED).

Python-based Subaerial Barrier Sediment Partitioning (pySBSP) model (ver. 1.0, February 2024)

The Python-based Subaerial Barrier Sediment Partitioning (pySBSP) model is a framework to simulate the morphological development of an idealized barrier coast in the cross-shore domain. It is based off the original framework of the same name, which is coded in in MATLAB. pySBSP consists of two scripts; one includes a basic graphical user interface (GUI) to simplify parameter input, while the other


The Everglades Forecasting application (EverForecast) is a hydrologic and multi-species management tool. Designed to support natural resource managers, the tool simulates near future water levels across the Florida Everglades and models the likely impacts on the habitats and populations of numerous species. EverForecast is part of the Joint Ecosystem Modeling (JEM) suite of tools. The scripts in t

North American Bat Monitoring Program: NABat Acoustic ML (version 2.0.0)

Bats play crucial ecological roles, and provide valuable ecosystem services, yet many populations face serious threats from various ecological disturbances. The North American Bat Monitoring Program (NABat) aims to assess status and trends of bat populations, while developing innovative and community-driven conservation solutions using its unique data and technology infrastructure. To support scal

Code to fit spatially explicit capture-recapture models to trapping data for western deer mice (Peromyscus sonoriensis) at Point Reyes National Seashore

This repository contains code to fit Spatially-Explicit Capture Recapture (SECR) Models to trapping data for Peromyscus sonoriensis (deer mice) at Point Reyes National Seashore and reproduce analyses in the following manuscript: Rose, J.P., Parsons, L.S., Kleeman, P.M., and Halstead, B.J. 2024. Effect of invasive plant removal on the density of Peromyscus sonoriensis (western deer mice) in Point

Aquaculture and Irrigation Water Use Model 2.0 Software

The Mississippi Alluvial Plain (MAP) is one of the most productive agricultural regions in the US and extracts more than 11 km3/year for irrigation activities. The heavy drivers of groundwater use are aquaculture and crops, which include rice, cotton, corn, and soybeans (Wilson, 2021). Consequently, groundwater-level declines in the MAP region (Clark and others, 2011) pose a substantial challenge