Software

EverSparrow is a spatially explicit Bayesian model of Cape Sable Seaside Sparrow (CSSS; Ammospiza maritima mirabilis) presence that quantifies the relationships between environmental factors and CSSS presence. Using hydrologic variables such as mean 4-year hydroperiod and maximum depth, fire history, and woody vegetation across the range of the CSSS, EverSparrow provides weekly...

This pipeline calculates a simple monthly water budget that includes water supply and consumptive use for irrigation, and public supply for 12-digit Hydrologic Unit Code (HUC12) subwatersheds across the conterminous United States for water years 2000-2020. Water budget results also include an assessment of supply and use imbalances within the context of historical climatic conditions to...

This repository processes and visualizes near–real-time groundwater and streamflow data from U.S. Geological Survey (USGS) sources. It uses a combination of R, Python, and GitLab CI to generate regularly updated map-based visualizations and publish them to AWS S3. The pipeline is designed to balance data completeness, update frequency, and API constraints while maximizing the number of...

The Everglades Vulnerability Analysis (EVA) is a series of connected Bayesian networks that model the landscape-scale response of indicators of Everglades ecosystem health to changes in hydrology, salinity, and temperature on the landscape. The modeling framework currently predicts the probability of vegetation types, wading bird regional nest abundance, freshwater prey fish biomass...

This repository provides a workflow to run the Joint Ecosystem Modeling (JEM) tool EverWaders. The repository takes the published model (D'Acunto et al. 2021) and allows a user to generate hydrometrics and model predictions from daily water depth data derived from the Everglades Depth Estimation Network (EDEN) or the Regional Simulation Model (RSM).

Like its predecessors, MODFLOW 6 is based on a highly modular structure; however, this structure has been extended into an object-oriented framework. The framework includes a robust and generalized numeri­cal solution object, which can be used to solve many different types of models. The numerical solution object has several different matrix preconditioning options as well as several...

This is an RShiny application to guide users through a decision tree and cost comparison tool to help them choose appropriate bird monitoring methods.

The Everglades Depth Estimation Network ([EDEN](https://sofia.usgs.gov/eden/)) provides water-level data for scientists, decision-makers, and managers to help monitor and assess Everglades restoration. EDEN is an integrated network of over 300 water-level gages, water-surface models, and ecological applications that provides continuous data for interpolated water-level and water-depth...

A wide array of environmental data collects over swathes of the United States exists in the Water Quality Portal characterizing surface water conditions relevant to the presence and growth of cyanobacteria. cyan_targets is a workflow utilizing the R targets package to streamline the process of locating, downloading, and compiling these data based on user-input location, period of time...

The software made available through this repository is designed to efficiently sample cross sections sampled from an underlying raster data set and thus facilitate various downstream applications. The program is intended to make this process convenient and is thus referred to as Tool for Automated Transect Extraction along Rivers, or TATER for short. For the purposes of this software...

Catch-and-release angling in flowing waters is widespread, but estimates of how many released fish die afterward vary, and it is unclear how much of that spread reflects biology as opposed to how each study was designed and how long it watched its fish. This repository holds the single R script behind the synthesis addressing that question: it compiles published delayed hooking-mortality...

This code automates the extraction of publicly available PDF documents from the Bureau of Land Management's National NEPA (National Environmental Policy Act) Register website based on a list of NEPA project numbers provided in a CSV file. It is designed to support scientific synthesis and analysis of environmental planning documents. It was developed for internal and partner use to...