Software

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...

This repository contains code to run the Estuarine Prey Fish Biomass model, using the biomass equation developed by Lorenz (2003). This equation was used for modeling prey fish biomass in Romañach et al. 2011 using Java, and this release implements the model in R to facilitate further model development and collaboration with partners. Some minor changes were made from the Java version to...

The SWB model estimates daily net infiltration and other water‑budget components using gridded soils, land‑use, and climate data. SWB 2.0 adds new process options, multiple canopy‑interception methods, a crop‑water‑demand approach, and more flexible input/output grids without needing resampling. Version 2.4 includes numerous bug fixes, updates to testing, updates to the build scripts...

The akqdecay package in the R language provides for computation of distributional statistics of hydrograph recession (decay) based on N-day-over-day changes of daily-mean streamflows for an arbitrary number of U.S. Geological Survey streamgages. Computations are oriented around what are termed AKQ discharge decay analyses. The analyses are focused on the distributional properties of the...

This repository contains an individual-based integral projection model with Allee effect. The repository includes a Jupyter Notebook that explains the model and the model outputs in addition to a Python file with code necessary to run the model.

This repository contains a R script to help with the U.S. Fish and Wildlife Service bigheaded carps monitoring program in the Upper Illinois River. The repository includes code to fit an occupancy model to the data and compare different monitoring program designs.

The HydrologicAlteration repository is primarily written in the R language, which is a computer language freely available for many computer platforms. The repository is most effectively run within the RStudio environment for R. The HydrologicAlteration software repository is purposed for the cubist models to predict hydrologic alterations in the Mobile and Perdido River basins. The...

R Shiny Code to produce a web tool where the public can explore the expertise of scientists at the Cooperative Research Units Program.

Nestucca Bay National Wildlife Refuge winter goose status and trend analyses.- Nestucca Bay National Wildlife Refuge, located on the central Oregon coast near Pacific City, Oregon, was founded in 1991 to provide coastal habitat to wintering Semidi Island Aleutian Cackling and Dusky Canada geese. To determine the success of the refuge in meeting its mission, the refuge annually conducts...

ANIA (Ver 1.0.0) ANIA (Ambient Noise Interferometry Algorithm) is a Matlab based code that solves for relative changes in seismic velocity (dvv) in the subsurface using ambient noise. In particular, the code is tuned to utilize ocean noise signals to carry out such dvv calculations. The dvv calculation can be carried out for the subsurface between two seismic stations or beneath a single...

Code repository for a low coverage Whole Genome Sequencing analysis on fishes of the genus Coregonus

This repository contains Python scripts for calculating black-sky, white-sky, and blue-sky (actual) albedo from the MODIS Bidirectional Reflectance Distribution Function (BRDF) parameters MCD43A1 product (doi.org/10.5067/MODIS/MCD43A1.061).