README.md

# USGS Public Project Explorer

 **[ABAM_project / ABAM_package](https://code.usgs.gov/abam/abam_package)**
_Updated: 2023-02-02T23:56:07.918Z_
 
R package ABAM facilitates the workflow for the Annual Brome Adaptive Management (ABAM) decision support tool. The ABAM program is a partnership between the National Park Service and USGS.
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 **[ARC / deep-learning-with-telemetry-data](https://code.usgs.gov/arc/deep-learning-with-telemetry-data)**
_Updated: 2019-11-13T21:58:18.625Z_
 
Repo for unsupervised clustering of golden eagle telemetry data with deep learning code
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 **[ARC / rasterized-building-footprints](https://code.usgs.gov/arc/rasterized-building-footprints)**
_Updated: 2020-06-23T18:02:08.528Z_
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 **[ASL / Papers / Ringler / Digitizer Paper](https://code.usgs.gov/asl/papers/ringler/digitizer-paper)**
_Updated: 2022-08-31T21:22:38.089Z_
 
This is code for an SRL paper on digitizers.
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 **[ASL / Papers / Ringler / GSN Timing](https://code.usgs.gov/asl/papers/ringler/gsn-timing)**
_Updated: 2021-05-12T23:18:29.302Z_
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 **[ASL / Papers / Ringler / Instrument Gallery Code](https://code.usgs.gov/asl/papers/ringler/instrument-gallery-code)**
_Updated: 2021-12-01T15:16:25.802Z_
 
This is code for the instrument failure gallery.  Ringler, A. T., D. Mason, G. Laske, T. Storm, and M. Templeton (2021).  Why do my squiggles look funny? A gallery of compromised seismic signals, Seismological Research letters.
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 **[ASL / Papers / Ringler / Rayleigh attenuation study](https://code.usgs.gov/asl/papers/ringler/rayleigh-attenuation-study)**
_Updated: 2021-03-11T19:17:16.185Z_
 
Code for Rayleigh wave inversion.
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 **[ASL / Papers / Ringler / Sensor Rodeo](https://code.usgs.gov/asl/papers/ringler/sensor-rodeo)**
_Updated: 2022-01-13T23:42:33.188Z_
 
Code for Local variations in broadband sensor installations: Orientations, sensitivities, and noise levels, Pure Appl. Geophys.
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 **[ASL / Papers / Ringler / Tonga-bichromatic](https://code.usgs.gov/asl/papers/ringler/tonga-bichromatic)**
_Updated: 2022-10-05T14:38:34.035Z_
 
Code for the Tonga bi-chromatic mode paper
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 **[ASL / Papers / Ringler / normal_mode_GSN](https://code.usgs.gov/asl/papers/ringler/normal_mode_gsn)**
_Updated: 2022-03-30T13:10:58.253Z_
 
Normal Modes GSN paper
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 **[ASL / Papers / dwilson / seismic-network-detection-modeling](https://code.usgs.gov/asl/papers/dwilson/seismic-network-detection-modeling)**
_Updated: 2023-01-10T23:23:12.426Z_
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 **[ASL / Papers / reanthony / Acoustic-Seismic-Observations](https://code.usgs.gov/asl/papers/reanthony/Acoustic-Seismic-Observations)**
_Updated: 2022-04-15T17:35:55.543Z_
 
Scripts to make figures presented in: "Characteristics, Relationships, and Precision of Direct Acoustic-to-Seismic Coupling Measurements from Local Explosions" which is under consideration for publication at Geophysical Journal International 
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 **[ASL / Papers / reanthony / SARNET_CNN_Film_Chip_Classifier ](https://code.usgs.gov/asl/papers/reanthony/sarnet_cnn_film_chip_classifier)**
_Updated: 2022-04-15T17:37:28.081Z_
 
This code is a convolutional neural network (CNN) that is used to sort World-Wide Standardized Seismographic Network film chips into different classes of "interestingness" based on amplitude variations of the traces recorded on the film chips. 
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 **[ASL / Papers / reanthony / TA-noise-maps-BSSA](https://code.usgs.gov/asl/papers/reanthony/ta-noise-maps-BSSA)**
_Updated: 2021-12-16T22:49:47.252Z_
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 **[ASL / asl-java-utils](https://code.usgs.gov/asl/asl-java-utils)**
_Updated: 2023-02-06T23:25:43.820Z_
 
Java code to handle common, shared processing tasks like SEED file loading and power spectra calculation
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 **[Alaska Science Center / Arctic_Shorebird_Population_Model](https://code.usgs.gov/asc/arctic_shorebird_population_model)**
_Updated: 2021-01-14T22:46:14.067Z_
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 **[Alaska Science Center / Bioinformatics / USGS_ASC_Python_and_Biopython_scripts](https://code.usgs.gov/asc/Bioinformatics/USGS_ASC_Python_and_Biopython_scripts)**
_Updated: 2020-03-04T18:32:43.372Z_
 
U.S. Geological Survey, Alaska Science Center, bioinformatic scripts written in Python and Biopython used to facilitate primer design, database development, and Next Generation Sequencing data processing
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 **[Alaska Science Center / Icemail](https://code.usgs.gov/asc/icemail)**
_Updated: 2021-04-29T22:59:46.917Z_
 
Scripting to support logistics and navigational planning in Alaskan ice bearing waters. Provides information in a manner that is convenient for users aboard offshore vessels and remote communities with limited internet data access.
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 **[Alaska Science Center / Nest_Survival_Bias_Analysis](https://code.usgs.gov/asc/nest_survival_bias_analysis)**
_Updated: 2022-08-18T21:55:49.327Z_
 
Script to simulate data and apply four estimators of nest success to evaluate bias resulting from changes in daily survival rates with age
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 **[Alaska Science Center / Photographic_Waterfowl_Survey_Izembek](https://code.usgs.gov/asc/photographic_waterfowl_survey_izembek)**
_Updated: 2022-12-24T13:04:51.929Z_
 
R scripts for analysis of fall photographic waterfowl surveys, Izembek NWR, Alaska, 2017-2019.
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 **[Alaska Science Center / QFASA Robustness to Assumption Violations](https://code.usgs.gov/asc/qfasa-robustness)**
_Updated: 2022-12-09T21:35:19.057Z_
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 **[Alaska Science Center / SBS_Polar_Bear_Dens](https://code.usgs.gov/asc/sbs_polar_bear_dens)**
_Updated: 2022-09-02T18:07:07.388Z_
 
Code for analysis of polar bear maternal den abundance and distribution in the Southern Beaufort Sea (1982-2015).
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 **[Alaska Science Center / qfasar](https://code.usgs.gov/asc/qfasar)**
_Updated: 2022-11-12T12:15:02.107Z_
 
Quantitative Fatty Acid Signature Analysis in R:  R functions comprising the package qfasar, which implements methods for quantitative fatty acid signature analysis (QFASA)
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 **[BHS Risk Tool Group / BHSRoCTGUI](https://code.usgs.gov/bhs-risk-tool-group/bhsroctgui)**
_Updated: 2021-09-23T15:38:43.029Z_
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 **[BHS Risk Tool Group / BHSforay](https://code.usgs.gov/bhs-risk-tool-group/bhsforay)**
_Updated: 2021-04-28T23:00:01.670Z_
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 **[BHS Risk Tool Group / BHSkde](https://code.usgs.gov/bhs-risk-tool-group/bhskde)**
_Updated: 2022-01-22T23:21:34.110Z_
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 **[BHS Risk Tool Group / Bighorn Sheep Risk Tool](https://code.usgs.gov/bhs-risk-tool-group/bighorn-sheep-risk-tool)**
_Updated: 2022-05-01T00:10:29.747Z_
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 **[CCH / DSAS](https://code.usgs.gov/cch/dsas)**
_Updated: 2022-02-10T19:04:21.639Z_
 
Digital Shoreline Analysis System
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 **[California Water Science Center / One Water Hydrologic Flow Model - Legacy / OneWater - Legacy Version](https://code.usgs.gov/cawsc/owhm/onewater)**
_Updated: 2019-11-08T20:04:11.803Z_
_Tags: Conjunctive Use | Fortran | Integrated Hydrologic Modeling | MF-OWHM | MODFLOW | MODFLOW-OWHM | Numerical Simulation | OneWater_
 
Legacy MF-OWHM for

Hanson, R.T. and others, 2018, Rio Grande ... U.S Geological Survey Open-File Report 2018–1091, https://doi.org/10.3133/ofr20181091

Superseded repo is at: 

https://code.usgs.gov/modflow/mf-owhm.git
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 **[California Water Science Center / draper](https://code.usgs.gov/cawsc/draper)**
_Updated: 2019-07-29T16:41:20.693Z_
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 **[California Water Science Center / project-work / MODFLOW 6 - LACP](https://code.usgs.gov/cawsc/project-work/modflow-6-modified-hfb-package)**
_Updated: 2023-01-24T22:00:41.219Z_
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 **[Chesapeake Bay Data Management / ChesapeakeBayDataCatalogApplication](https://code.usgs.gov/chesapeake-bay-data-management/ChesapeakeBayDataCatalogApplication)**
_Updated: 2022-07-25T14:34:14.621Z_
 
This code develops an RShiny application to interact with the USGS Chesapeake Bay Theme 4 Data Catalog to assist users in identifying and interacting with datasets used in and across efforts related to the USGS Chesapeake Bay science efforts. 
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 **[Chesapeake Bay Science / Assessments / OverlapZones_kkrause](https://code.usgs.gov/chesapeake-bay-science/assessments/overlapzones_kkrause)**
_Updated: 2021-03-09T15:40:49.330Z_
 
Summarize raster layers within overlapping polygons. This project contains a script and files relating to the summarization of continuous and discrete raster data within overlapping zones.
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 **[Columbia River Research Lab - Quantitative Fisheries Ecology Section / Enhanced_Acoustic_Telemetry_Project](https://code.usgs.gov/crrl_qfes/Enhanced_Acoustic_Telemetry_Project)**
_Updated: 2023-01-25T18:08:14.346Z_
 
Project to house daily simulations from the Delta STARS model.
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 **[Columbia River Research Lab - Quantitative Fisheries Ecology Section / Winter_Run_CJS](https://code.usgs.gov/crrl_qfes/Winter_Run_CJS)**
_Updated: 2022-11-23T19:08:55.343Z_
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 **[Community for Data Integration / CDI FY16 / evac_dash](https://code.usgs.gov/cdi/cdi-fy16/evac_dash)**
_Updated: 2020-04-10T21:02:55.334Z_
 
Code repository for projects funded by the USGS Community for Data Integration
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 **[Community for Data Integration / CDI FY16 / hazardviz](https://code.usgs.gov/cdi/cdi-fy16/hazardviz)**
_Updated: 2020-04-10T21:18:17.237Z_
 
Code repository for projects funded by the USGS Community for Data Integration
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 **[Community for Data Integration / CDI FY16 / hunting_invasive_species_with_htcondor](https://code.usgs.gov/cdi/cdi-fy16/hunting_invasive_species_with_htcondor)**
_Updated: 2020-04-10T21:19:31.045Z_
 
Code repository for projects funded by the USGS Community for Data Integration
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 **[Community for Data Integration / CDI FY17 / photometadata-webmap-cdi](https://code.usgs.gov/cdi/CDI-FY17/photometadata-webmap-cdi)**
_Updated: 2020-04-10T20:38:31.922Z_
 
Code repository for projects funded by the USGS Community for Data Integration
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 **[Community for Data Integration / CDI FY20 / Jupyter Data Stories](https://code.usgs.gov/cdi/cdi-fy20/jupyter-data-stories)**
_Updated: 2021-01-04T21:18:03.813Z_
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 **[CooperativeResearchUnits / American alligator growth simulation and integrated population model](https://code.usgs.gov/cooperativeresearchunits/alligator-simulation-and-model)**
_Updated: 2022-11-08T18:17:50.501Z_
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 **[CooperativeResearchUnits / Bayesian Analysis of Line Transect Distance Sampling ](https://code.usgs.gov/cooperativeresearchunits/vegetation-ltds)**
_Updated: 2022-09-12T14:43:49.055Z_
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 **[CooperativeResearchUnits / Co-occurrence Simulation ](https://code.usgs.gov/cooperativeresearchunits/co-occurrence-simulation)**
_Updated: 2022-04-29T18:17:21.964Z_
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 **[CooperativeResearchUnits / Code for assimilating ecological theory with empiricism. Using constrained generalized additive models to enhance survival analyses](https://code.usgs.gov/cooperativeresearchunits/enhanced-survival-analyses)**
_Updated: 2023-01-19T19:51:36.360Z_
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 **[CooperativeResearchUnits / Geoprocessing Layers](https://code.usgs.gov/cooperativeresearchunits/geoprocessing-layers)**
_Updated: 2022-04-07T17:59:05.633Z_
 
The Processing of Geospatial Data for the Habitat Risk Software allows the user to process publicly available geospatial data into the format necessary for inclusion in the Habitat Risk Software (Hanley et al. 2021), which is the software that levera
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 **[CooperativeResearchUnits / HSC-ADP](https://code.usgs.gov/cooperativeresearchunits/hsc-adp)**
_Updated: 2022-11-03T15:32:58.187Z_
 
Optimal horseshoe crab harvest policies via approximate dynamic programming
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 **[CooperativeResearchUnits / Inferring pathogen presence when sample misclassification and partial observation occur](https://code.usgs.gov/cooperativeresearchunits/pathogen-presence)**
_Updated: 2023-01-23T17:32:40.667Z_
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 **[CooperativeResearchUnits / Integrated population model for red knot in Delaware Bay](https://code.usgs.gov/cooperativeresearchunits/integrated-population-model-red-knot)**
_Updated: 2023-01-19T20:17:20.903Z_
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 **[CooperativeResearchUnits / Modeling gopher tortoises population viability](https://code.usgs.gov/cooperativeresearchunits/modeling-gopher-tortoises-population-viability)**
_Updated: 2022-05-10T17:53:11.426Z_
 
The code was developed to support the SSA and listing decision for Gopher Tortoises
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 **[CooperativeResearchUnits / Predicting climate change impacts on poikilotherms using physiologically guided species abundance models](https://code.usgs.gov/cooperativeresearchunits/predicting-climate-change-poikilotherms)**
_Updated: 2022-12-20T16:11:51.625Z_
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 **[CooperativeResearchUnits / Rapid prototyping for quantifying belief weights of competing hypotheses about emergent diseases](https://code.usgs.gov/cooperativeresearchunits/rapid-prototyping)**
_Updated: 2023-01-19T20:11:29.045Z_
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 **[CooperativeResearchUnits / Simulations to understand and validate models](https://code.usgs.gov/cooperativeresearchunits/model-simulations)**
_Updated: 2022-12-06T13:21:09.400Z_
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 **[CooperativeResearchUnits / Spatial modeling of two mosquito vectors of West Nile virus using integrated nested Laplace approximation](https://code.usgs.gov/cooperativeresearchunits/modeling-mosquito-vectors)**
_Updated: 2022-10-28T15:24:34.574Z_
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 **[DevOps / Images](https://code.usgs.gov/devops/images)**
_Updated: 2023-01-25T21:47:45.382Z_
 
This project serves as an image registry for use througout the USGS. Some images
are direct mirrors from Docker Hub and provided for reliable access while on the
DOI network.
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 **[EH Geospatial CTT / Applications](https://code.usgs.gov/eh-geospatial-ctt/applications)**
_Updated: 2022-05-31T00:10:31.759Z_
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 **[ESC / Operational Aftershock Forecasting / OAF Tools - R Package](https://code.usgs.gov/esc/oaf/oaftools-R)**
_Updated: 2022-09-21T02:10:32.049Z_
 
R package that allows the user to query ComCat with defined parameters and provides tools to examine USGS operational aftershock forecasts.
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 **[Eastern Ecological Science Center / sars-cov-2-transmission-risk-from-humans-to-bats](https://code.usgs.gov/eastern-ecological-science-center/sars-cov-2-transmission-risk-from-humans-to-bats)**
_Updated: 2021-10-22T11:21:47.008Z_
_Tags: COVID-19 | SARS-COV-2 | bats | risk assessment | wildlife disease | zoonotic_
 
Decision-Support Tool to Estimate SARS-CoV-2 Human-to-bat Transmission Risk
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 **[Ecosystems / FRESC / ArcGIS Pro Custom Barcode Creation Tool](https://code.usgs.gov/ecosystems/FRESC/arcgis-pro-custom-barcode-creation-tool)**
_Updated: 2019-02-28T18:51:28.366Z_
 
This tool is being provided free to the public in support of field and laboratory specialists who would like to create custom bar codes in order to better maintain their field and laboratory samples.
This data release contains all of the source code.
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 **[Ecosystems / FRESC / GIS Clipping and Summarization Toolbox](https://code.usgs.gov/ecosystems/FRESC/gis-clipping-and-summarization-toolbox)**
_Updated: 2022-01-11T18:56:19.727Z_
 
This ArcGIS Pro toolbox assists users to efficiently summarize and compile raster information within discrete units (polygons or points) in an area of interest or to create a frequency raster that counts the number of overlapping polygons.
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 **[Ecosystems / FRESC / Mercury Condition Index Tool](https://code.usgs.gov/ecosystems/FRESC/mercury-condition-index-tool)**
_Updated: 2022-06-06T22:22:12.822Z_
 
The Mercury Condition Index Tool uses existing data of mercury concentrations in certain animals within national parks to estimate a park level Condition Index (and associated uncertainty) for mercury.
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 **[Ecosystems / FRESC / cbinom-dpqr-family-of-functions](https://code.usgs.gov/ecosystems/FRESC/cbinom-dpqr_family-of-functions)**
_Updated: 2019-07-30T17:34:41.041Z_
 
This R package provides a standard d/p/q/r suite of functions for a continuous binomial distribution as presented by: Ilienko, Andreii. 2013. 
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 **[Ecosystems / FRESC / dwp](https://code.usgs.gov/ecosystems/FRESC/dwp)**
_Updated: 2022-01-31T23:24:49.516Z_
 
R package for estimating fraction of bird and bat carcasses lying in the searched area at wind and solar power facilities.
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 **[Ecosystems / FRESC / sagebrush_hurdle_model](https://code.usgs.gov/ecosystems/FRESC/sagebrush_hurdle_model)**
_Updated: 2019-06-27T16:12:22.705Z_
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 **[Ecosystems / GenEst](https://code.usgs.gov/ecosystems/GenEst)**
_Updated: 2021-07-21T19:26:15.255Z_
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 **[FluEgg / fluegg](https://code.usgs.gov/FluEgg/fluegg)**
_Updated: 2023-01-26T15:45:20.196Z_
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 **[GECSC / CA_BP_features_acmse22](https://code.usgs.gov/gecsc/ca_bp_features_acmse22)**
_Updated: 2022-04-15T20:23:13.136Z_
 
Source code for the paper: Pastorino, J., et al. 2022. Determination of Optimal Set of Spatio-temporal Features for Predicting Burn Probability in the State of California, USA. In 2022 ACMSE'22https://doi.org/10.1145/3476883.3520228
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 **[GECSC / Tracking disturbance and inundation to identify wetland loss](https://code.usgs.gov/gecsc/tracking-disturbance-and-inundation-to-identify-wetland-loss)**
_Updated: 2020-06-19T17:14:10.924Z_
 
This project uses Landsat image collections, processed with JavaScript codes in Google Earth Engine, to track annual inundation and disturbance extent. The projects study area extent is the Mid-Atlantic Region, United States.
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 **[GFT / Python GIS Flood Tool](https://code.usgs.gov/gft/python-gis-flood-tool)**
_Updated: 2021-07-22T19:24:04.452Z_
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 **[GMEG / ReplicateChar](https://code.usgs.gov/gmeg/replicatechar)**
_Updated: 2023-01-31T19:40:20.035Z_
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 **[GMEGSC / gravmagsubs](https://code.usgs.gov/gmegsc/gravmagsubs)**
_Updated: 2023-01-25T18:10:35.704Z_
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 **[GMEGSC / ibluff](https://code.usgs.gov/gmegsc/ibluff)**
_Updated: 2022-11-03T20:40:56.423Z_
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 **[Genetics for Western Restoration and Conservation / popmaps](https://code.usgs.gov/GWRC/popmaps)**
_Updated: 2022-11-03T20:43:20.334Z_
 
Population Management using Ancestry Probability Surfaces
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 **[Great Lakes Science Center / Wetlands / Annual Management Unit Summary Code](https://code.usgs.gov/great-lakes-science-center/wetlands/annual-management-unit-summary-code)**
_Updated: 2023-01-31T20:03:15.840Z_
 
This software summarizes participant data submitted to the Phragmites Adaptive Management Framework into individualized PDF reports that allow participants to track and share their progress in the program.
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 **[Great Lakes Science Center / Wetlands / Data analysis and figures for Differences in Rhizosphere Microbial Communities Between Native and Non-Native Phragmites australis May Depend on Stand Density](https://code.usgs.gov/great-lakes-science-center/wetlands/Phrag-Rhizosphere-Analysis)**
_Updated: 2021-08-12T15:14:43.850Z_
 
This repository hold the code to reproduce the data analyses and figures found in "Differences in Rhizosphere Microbial Communities Between Native and Non-Native Phragmites australis May Depend on Stand Density" published in Ecology and Evolution.
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 **[HyMETT / HyMETT](https://code.usgs.gov/hymett/hymett)**
_Updated: 2023-01-30T19:53:57.682Z_
 
HyMETT R package
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 **[INLPO / ObsNetQW](https://code.usgs.gov/inl/obsnetqw)**
_Updated: 2021-07-19T16:52:08.787Z_
 
Assessment of a water-quality aquifer monitoring network
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 **[INLPO / inldata](https://code.usgs.gov/inl/inldata)**
_Updated: 2023-01-31T01:48:07.239Z_
 
Collection of datasets for the USGS-INL aquifer monitoring networks
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 **[INLPO / inlpubs](https://code.usgs.gov/inl/inlpubs)**
_Updated: 2022-10-27T06:57:16.694Z_
 
USGS INL Project Office publications: https://rconnect.usgs.gov/inlpo/inlpubs/
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 **[ISO Content Specs / Basic Modules](https://code.usgs.gov/iso-content-specs/basic-modules)**
_Updated: 2022-05-26T17:39:38.227Z_
 
Essential modules for ISO metadata, defining documentation requirements for Basic (all USGS metadata), Geospatial, Lineage, Biological.
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 **[Legleiter, Carl J. / ORByT - Optical River Bathymetry Toolkit](https://code.usgs.gov/cjl/orbyt-optical-river-bathymetry-toolkit)**
_Updated: 2022-03-17T14:10:32.021Z_
 
The Optical River Bathymetry Toolkit, ORByT, is an application to facilitate mapping water depth in river channels from passive optical image data.  ORByT provides an integrated workflow for image processing, depth retrieval, and export of results.
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 **[MAKB / MapKB](https://code.usgs.gov/makb/MapKB)**
_Updated: 2022-06-01T00:10:42.101Z_
 
This is the proof-of-concept for the Map as a Knowledge Base (MapKB). Dalia Varanka and Lynn Usery created the conceptual design and the software implementation was developed by Jacques Bourquin. 
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 **[MAKB / MapKB Assets](https://code.usgs.gov/makb/mapkb-assets)**
_Updated: 2021-05-13T23:09:04.057Z_
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 **[MAKB / MapKB Docker Container](https://code.usgs.gov/makb/mapkb-docker-container)**
_Updated: 2021-05-14T17:03:51.032Z_
 
Docker container for MapKB
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 **[Mississippi Alluvial Plain / gw / Convert infoGW to GWmaster for visGWDB](https://code.usgs.gov/map/gw/infoGW2visGWDB)**
_Updated: 2022-07-25T18:12:23.097Z_
_Tags: Benford's law | groundwater | water level_
 
An R groundwater-data processing utility for manipulating, veracity checking, and converting an 'infoGW' object to the 'GWmaster' object for the visGWDB software with demonstration for the Mississippi River Valley alluvial aquifer.
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 **[Mississippi Alluvial Plain / gw / GW Level Stat Models / covMRVAgen1](https://code.usgs.gov/map/gw/levs/covMRVAgen1)**
_Updated: 2023-02-04T15:44:50.406Z_
 
Generation 1 series of statistical modeling of water levels in the Mississippi River Valley alluvial aquifer, Mississippi River alluvial plain.
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 **[Mississippi Alluvial Plain / gw / Groundwater informatics](https://code.usgs.gov/map/gw/visGWDBmrva)**
_Updated: 2021-03-20T13:33:23.025Z_
_Tags: generalized additive model | groundwater | hydrograph | statistics | support vector machine | water level_
 
The code collection of visGWDB is a framework for groundwater-level informatics. This visGWDBmrva repository is made to be a static demonstration for the Mississippi River Valley alluvial aquifer (MRVA) and support of other derivative products.
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 **[Mississippi Alluvial Plain / maprandomforest](https://code.usgs.gov/map/maprandomforest)**
_Updated: 2021-06-08T18:06:38.808Z_
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 **[Mississippi Alluvial Plain / wu / aiwum1](https://code.usgs.gov/map/wu/aiwum1)**
_Updated: 2021-03-31T18:47:08.953Z_
 
Aquaculture and Irrigation Water-Use Model (AIWUM) version 1 with demonstration for the Mississippi Alluvial Plain.
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 **[NPWRC-R / hexgrid](https://code.usgs.gov/npwrc-r/hexgrid)**
_Updated: 2021-07-22T17:16:39.281Z_
_Tags: Construction and analysis of hexagonal grids_
 
Package `hexgrid` supports the representation, construction, and analysis of polygons in general and hexagonal grids in particular, with an emphasis on applications in wildlife ecology.
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 **[NPWRC-R / mort](https://code.usgs.gov/npwrc-r/mort)**
_Updated: 2020-10-27T15:00:53.841Z_
 
R functions and tutorials: Organizing interval data and estimating cause-specific mortality.
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 **[NWHC software / Applying Simulated Treatments to Bat Populations Experiencing Severe White-nose Syndrome Mortality](https://code.usgs.gov/nwhc-software/simulated-WNS-treatments)**
_Updated: 2022-08-18T14:44:48.880Z_
 
We developed a model allowing for the application of treatment strategies to bat populations at risk of severe mortality from white-nose syndrome.
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 **[NWHC software / Software for Space matters - host spatial structure and model plague transmission dynamics and pathways](https://code.usgs.gov/nwhc-software/space-matters)**
_Updated: 2022-06-21T15:14:55.974Z_
 
Russell, R.E., 2020, Data and Software for Space matters: host spatial structure and model plague transmission dynamics and pathways: U.S. Geological Survey software release, https://doi.org/10.5066/P97AJ6LY.
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 **[PCMSC / AgisoftAlignmentErrorReduction](https://code.usgs.gov/pcmsc/AgisoftAlignmentErrorReduction)**
_Updated: 2023-01-20T21:04:15.829Z_
 
Automated image alignment and sparse point cloud error reduction in Agisoft Metashape.
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 **[PCMSC / Marfac Machine Vision Camera Interface](https://code.usgs.gov/pcmsc/marfac-flir-camera-interface)**
_Updated: 2021-09-21T21:03:28.470Z_
_Tags: C# | FLIR | GigE | Machine Vision_
 
This project contains the C# software developed to control and acquire imagery from a FLIR GigE machine vision camera. It is built using the FLIR Spinnaker 64bit SDK version 2.4.0.144 and requires the spinview application and associated dll's.
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 **[PCMSC / dash_doodler](https://code.usgs.gov/pcmsc/dash_doodler)**
_Updated: 2022-02-04T21:47:32.470Z_
 
Doodler--A web application built with plotly/dash for image segmentation with minimal supervision
 ___
 **[PRISM / prism_engine](https://code.usgs.gov/prism/prism_engine)**
_Updated: 2021-02-06T17:18:09.062Z_
 ___
 **[PRISM / prism_review_tool](https://code.usgs.gov/prism/prism_review_tool)**
_Updated: 2022-12-21T20:13:27.338Z_
 
The PRISM Review Tool is a desktop application for review and editing of COSMOS formatted files.
 ___
 **[QRev / QRevPy](https://code.usgs.gov/QRev/QRevPy)**
_Updated: 2023-01-26T15:51:55.472Z_
 
QRev in Python
 ___
 **[RSQ / RSQcomp](https://code.usgs.gov/rsq/rsqcomp)**
_Updated: 2022-04-21T16:20:49.223Z_
 
RSQcomp is an R package that calculates remotely sensed discharge based on the altimdswe relationship. 
 ___
 **[RSQ / altimDSWE](https://code.usgs.gov/rsq/altimdswe)**
_Updated: 2022-03-31T13:25:28.832Z_
 
altimDSWE is an R package that relates altimetry heights to dynamic surface water extent for the purposes of remote sensing large ungaged rivers. 
 ___
 **[SPCMSC / Cliff Feature Delineation Tool and Baseline Builder](https://code.usgs.gov/spcmsc/cliff-feature-delineation-tool-and-baseline-builder)**
_Updated: 2020-08-19T14:30:16.647Z_
 
The Cliff Feature Delineation Tool scans digital elevation models (DEM) to delineate features on seacliffs like the cliff top, midline, toe, and convexities/concavities on the cliff face, outputting linear features as polylines and point shapefiles. 
 ___
 **[SPCMSC / Keys Carbonate Budgets](https://code.usgs.gov/spcmsc/keys_carbonate_budgets)**
_Updated: 2022-06-07T13:16:30.952Z_
 ___
 **[SPCMSC / Multi-grid Analysis of Point Stability](https://code.usgs.gov/spcmsc/multi-grid-analysis-of-point-stability)**
_Updated: 2021-05-26T17:44:40.931Z_
 ___
 **[SPCMSC / Seafloor Elevation Change Analysis Tool](https://code.usgs.gov/spcmsc/volume-and-elevation-calculation-software)**
_Updated: 2021-05-20T21:14:15.318Z_
 
Seafloor Elevation Change Analysis Tool (SECAT) is a script that computes both elevation change and volume change between two sets of data covering the same area at different points in time. 
 ___
 **[SPCMSC / Subaerial Barrier Sediment Partitioning Model](https://code.usgs.gov/spcmsc/subaerial-barrier-sediment-partitioning-model)**
_Updated: 2020-10-30T17:59:03.459Z_
 ___
 **[Science Analytics and Synthesis / BioScience / drip / drip-dash-app](https://code.usgs.gov/sas/bioscience/drip/drip-dash-app)**
_Updated: 2022-06-07T21:09:46.218Z_
 
A tool for exploring trends about dam removal science and querying published scientific studies that evaluate environmental response to dam removals.
 ___
 **[Science Analytics and Synthesis / BioScience / drip / pydrip](https://code.usgs.gov/sas/bioscience/drip/pydrip)**
_Updated: 2022-03-24T18:09:42.761Z_
 
This package handles retrieval and preparation of the source data for the Dam Removal Information Portal API. 
 ___
 **[Science Analytics and Synthesis / BioScience / wildlife-wrangler](https://code.usgs.gov/sas/bioscience/wildlife-wrangler)**
_Updated: 2023-02-06T22:39:44.871Z_
 ___
 **[Science Analytics and Synthesis / BioScience / xstrm](https://code.usgs.gov/sas/bioscience/xstrm)**
_Updated: 2021-12-15T16:26:14.059Z_
 
A USGS software package and associated command line tool that captures universal methods for stream network summarization.  
 ___
 **[Science Analytics and Synthesis / BioScience / xstrm_local](https://code.usgs.gov/sas/bioscience/xstrm_local)**
_Updated: 2022-10-03T20:50:47.815Z_
_Tags: landscape ecology_
 
This Python package is intended to assist with summarization of landscape information to stream watershed drainages (local summaries). Methods are built in a generalized way and are intended to support efforts for any stream network having polygon based drainage watersheds. The output of these methods can be used to calculate stream network summaries using [xstrm](https://doi.org/10.5066/P9P8P7Z0).
 ___
 **[Science Analytics and Synthesis / Science Data Management / Model catalog / intake](https://code.usgs.gov/sas/sdm/model-catalog/intake)**
_Updated: 2023-01-26T20:27:09.802Z_
_Tags: metadata_
 
Model metadata that supports the USGS Model Catalog
 ___
 **[Science Analytics and Synthesis / Science Data Management / Model catalog / tam](https://code.usgs.gov/sas/sdm/model-catalog/tam)**
_Updated: 2022-12-14T19:02:07.450Z_
 
For active development, go to https://github.com/DOI-USGS/modelcatalog-tam. 
 ___
 **[Science Analytics and Synthesis / Science Data Management / publink](https://code.usgs.gov/sas/sdm/publink)**
_Updated: 2020-08-21T21:11:55.141Z_
 ___
 **[SolVES / SolVES 4.0](https://code.usgs.gov/solves/solves-4.0)**
_Updated: 2022-05-25T12:27:52.697Z_
 
Source code for SolVES 4.0 developed in python as a QGIS plugin.
 ___
 **[Southwest Gravity Program / GSadjust](https://code.usgs.gov/sgp/gsadjust)**
_Updated: 2022-10-21T18:13:56.437Z_
 
GUI for processing gravity-survey data
 ___
 **[Southwest Gravity Program / Gravity Data Spreadsheet](https://code.usgs.gov/sgp/gravity-data-spreadsheet)**
_Updated: 2021-02-24T14:48:26.913Z_
 
Excel Workbooks for collecting relative-gravity data 
 ___
 **[StreamStats / Data Preparation / CPG / FCPGtools](https://code.usgs.gov/StreamStats/data-preparation/cpg/FCPGtools)**
_Updated: 2023-02-06T20:09:22.734Z_
 
Tools to create flow-conditioned parameter grids (FCPGs) from flow direction grids and input parameter datasets.  Documentation: https://usgs.github.io/water-fcpg-tools/build/html/index.html
 ___
 **[StreamStats / Data Preparation / DataPrepTools](https://code.usgs.gov/StreamStats/data-preparation/datapreptools)**
_Updated: 2023-02-02T17:50:52.248Z_
 
Tools for preparing terrain data for inclusion in USGS StreamStats. Documentation: https://usgs.github.io/water-datapreptools/
 ___
 **[StreamStats / Flood Frequency / PFFREX](https://code.usgs.gov/StreamStats/flood-frequency/pffrex)**
_Updated: 2023-01-03T21:51:05.328Z_
 
Peak Flow Frequency R EXtensions
 ___
 **[StreamStats / Web Services and APIs / ChannelWeighting](https://code.usgs.gov/StreamStats/web-services-and-apis/ChannelWeighting)**
_Updated: 2023-01-01T00:10:09.549Z_
 
StreamStats Channel Width Weighting Services
 ___
 **[StreamStats / Web Services and APIs / GageStatsServices](https://code.usgs.gov/StreamStats/web-services-and-apis/GageStatsServices)**
_Updated: 2023-02-02T15:21:28.164Z_
 ___
 **[UMESC / Long Term Resource Monitoring / Interpolating missing water quality data](https://code.usgs.gov/umesc/ltrm/interpolating-missing-water-quality-data)**
_Updated: 2022-10-24T18:25:09.246Z_
 
data and codes to interpolate missingness in water quality data from the Mississippi River
 ___
 **[UMESC / PESTPP_sensitivity_analysis](https://code.usgs.gov/umesc/pestpp_sensitivity_analysis)**
_Updated: 2020-01-30T21:12:58.599Z_
 
An example of using the PESTPP software for sensitivity analysis on an ecological model. 
 ___
 **[UMESC / fishStan](https://code.usgs.gov/umesc/fishStan)**
_Updated: 2020-10-16T13:21:39.256Z_
 
A collection of fisheries models coded in Stan.
 ___
 **[UMESC / introduction_to_r](https://code.usgs.gov/umesc/introduction_to_r)**
_Updated: 2020-11-16T14:39:27.245Z_
 
Introduction to R tutorial. 
 ___
 **[UMESC / occupancy_correlated_error](https://code.usgs.gov/umesc/occupancy_correlated_error)**
_Updated: 2020-11-16T14:31:56.155Z_
 
This project presents an occupancy model with correlated error structure. 
 ___
 **[UMESC / quant-ecology / Carp Demographic Rates](https://code.usgs.gov/umesc/quant-ecology/carp_demographic_rates)**
_Updated: 2022-02-28T21:31:34.388Z_
 
Fits hierarchical models to carp data.
 ___
 **[UMESC / quant-ecology / Monosex control within integrated pest management](https://code.usgs.gov/umesc/quant-ecology/monosex-control-within-integrated-pest-management)**
_Updated: 2023-01-25T18:32:03.602Z_
 ___
 **[UMESC / quant-ecology / SEICarP Application](https://code.usgs.gov/umesc/quant-ecology/seicarp-application)**
_Updated: 2022-11-01T15:02:46.016Z_
 
This is repo contains an application of the Spatially Explicit Invasive Carp (SEICarP) model.
 ___
 **[UMESC / quant-ecology / SEICarP_IL](https://code.usgs.gov/umesc/quant-ecology/seicarp_il)**
_Updated: 2022-09-13T16:44:16.540Z_
 
Spatially Explicit Invasive Carp Population (SEICarP) for the Illinois River
 ___
 **[UMESC / quant-ecology / YY-male life history](https://code.usgs.gov/umesc/quant-ecology/yy-male-life-history)**
_Updated: 2022-06-29T15:20:07.944Z_
 ___
 **[UMESC / quant-ecology / biolake](https://code.usgs.gov/umesc/quant-ecology/biolake)**
_Updated: 2022-10-26T14:18:13.059Z_
 ___
 **[UMESC / quant-ecology / climatchR](https://code.usgs.gov/umesc/quant-ecology/climatchr)**
_Updated: 2023-01-30T02:31:09.827Z_
 
An R implementation of Climatch (https://climatch.cp1.agriculture.gov.au/).
 ___
 **[UMESC / quant-ecology / climatchr_htcondor](https://code.usgs.gov/umesc/quant-ecology/climatchr_htcondor)**
_Updated: 2022-01-10T15:50:59.755Z_
 ___
 **[UMESC / quant-ecology / ecotoxicology_hierarhcial_data](https://code.usgs.gov/umesc/quant-ecology/ecotoxicology_hierarhcial_data)**
_Updated: 2022-03-29T18:08:50.207Z_
 ___
 **[UMESC / quant-ecology / fishStan](https://code.usgs.gov/umesc/quant-ecology/fishstan)**
_Updated: 2022-06-09T16:54:54.974Z_
 
Version 2+ of the fishStan package.
 ___
 **[UMESC / quant-ecology / metaipm](https://code.usgs.gov/umesc/quant-ecology/metaipm)**
_Updated: 2023-02-04T15:20:40.368Z_
 
A Meta-population Integral Projection Model
 ___
 **[UMESC / quant-ecology / metaipm-example](https://code.usgs.gov/umesc/quant-ecology/metaipm-example)**
_Updated: 2022-09-22T19:21:00.851Z_
 ___
 **[UMESC / quant-ecology / occStan](https://code.usgs.gov/umesc/quant-ecology/occstan)**
_Updated: 2022-09-08T17:46:01.378Z_
 
Occupancy modeling with Stan
 ___
 **[UMESC / quant-ecology / occStan_hm](https://code.usgs.gov/umesc/quant-ecology/occstan_hm)**
_Updated: 2022-10-12T18:38:04.094Z_
 ___
 **[UMESC / quant-ecology / stats_code / Grass Carp eDNA pond study](https://code.usgs.gov/umesc/quant-ecology/stats_code/grass-carp-edna-pond-study)**
_Updated: 2022-09-20T19:10:13.099Z_
 ___
 **[UMESC / quant-ecology / stats_code / Indiana mussel metabolomics data analysis](https://code.usgs.gov/umesc/quant-ecology/stats_code/mussel-metabolomics)**
_Updated: 2023-01-25T14:18:36.707Z_
 ___
 **[UMESC / quant-ecology / stats_code / sudan_black](https://code.usgs.gov/umesc/quant-ecology/stats_code/sudan_black)**
_Updated: 2022-10-13T16:08:20.114Z_
 ___
 **[UMESC / wthogmartin / BatTool](https://code.usgs.gov/umesc/wthogmartin/BatTool)**
_Updated: 2022-09-14T15:51:53.015Z_
 
Bat Population Projection Using Demographic Modeling with Shiny Application
 ___
 **[USGS Fortran / Batteries Included Fortran Library](https://code.usgs.gov/fortran/bif)**
_Updated: 2023-02-02T01:37:55.358Z_
 
Batteries Included Fortran Library (BiF-lib)

BiF-lib assists in file I/O, common operations present in other languages, and include data types that mimic python data types (list and dict).

[Go to Readme](https://code.usgs.gov/fortran/bif#-)
 ___
 **[USGS MODFLOW / MODFLOW One-Water Hydrologic Flow Model](https://code.usgs.gov/modflow/mf-owhm)**
_Updated: 2023-02-02T02:42:50.845Z_
_Tags: Conjunctive Use | Fortran | Integrated Hydrologic Modeling | MF-OWHM | MODFLOW | MODFLOW-OWHM | Numerical Simulation | OWHM | OneWater_
 
MODFLOW OWHM Official Download and Source Repository

**For download links and background info go to the [README](https://code.usgs.gov/modflow/mf-owhm#-)**

or scroll down until you see the MF-OWHM banner
 ___
 **[VSC / Publications / Flinders_A / H2-seafloor-estimator](https://code.usgs.gov/vsc/publications/flinders_a/H2-seafloor-estimator)**
_Updated: 2020-09-16T20:17:46.006Z_
_Tags: oceanography | planetary science_
 
Supplemental Materials for;
Sauvage, J. F., et al. The contribution of water radiolysis to marine sedimentary life, Nature Communications (submitted) (2020).
 ___
 **[VSC / Publications / gTOOLS](https://code.usgs.gov/vsc/publications/gtools)**
_Updated: 2023-01-24T08:07:33.342Z_
 ___
 **[VSC / Swarm](https://code.usgs.gov/vsc/swarm)**
_Updated: 2021-03-25T23:51:47.105Z_
 
A Java application designed to display and analyze seismic waveforms in real-time. See http://volcanoes.usgs.gov/software/swarm.
 ___
 **[VTCFWRU / AMModels](https://code.usgs.gov/vtcfwru/ammodels)**
_Updated: 2019-12-13T22:42:10.316Z_
 
The R package AMModels and supporting documentation. Please read the ReadMe file below to get started.

:point_left:  Look for the Wiki link in the left menu.

 ___
 **[VTCFWRU / AMMonitor](https://code.usgs.gov/vtcfwru/ammonitor)**
_Updated: 2023-02-06T17:27:40.035Z_
_Tags: The R package AMMonitor._
 
The R package AMMonitor and supporting documentation.  Please read the ReadMe file below to get started.


 ___
 **[VTCFWRU / AMPop](https://code.usgs.gov/vtcfwru/ampop)**
_Updated: 2021-05-06T15:28:04.166Z_
 
The R package AMPop and supporting documentation.  Please read the ReadMe file below to get started.


:point_left:  Look for the Wiki link in the left menu.

 ___
 **[VTCFWRU / shinymgr](https://code.usgs.gov/vtcfwru/shinymgr)**
_Updated: 2022-09-18T14:57:31.327Z_
 
A framework for building, managing, and stitching shiny modules into reproducible workflows 
 ___
 **[WARC / JEM / models / jem_netcdf_r](https://code.usgs.gov/warc/jem/models/jem_netcdf_r)**
_Updated: 2023-02-01T21:06:33.583Z_
 
R-language code library to support NetCDF I/O. 
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / SMaRT](https://code.usgs.gov/werc/dixon-field-station/coates-lab/smart)**
_Updated: 2022-03-24T21:51:44.595Z_
 
Science-based Management of Ravens Tool
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / raventools](https://code.usgs.gov/werc/dixon-field-station/coates-lab/raventools)**
_Updated: 2022-06-15T20:48:40.128Z_
 
spatial data and functions for the Science-based Management of Ravens (SMaRT) application
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / rsgis](https://code.usgs.gov/werc/dixon-field-station/coates-lab/rsgis)**
_Updated: 2022-06-15T21:19:41.098Z_
 
Package containing spatial data for sage-grouse tools
 ___
 **[WERC / Dixon_Field_Station / Halstead-lab / YOSE_Amphibian_Occ_Code_Release](https://code.usgs.gov/werc/dixon-field-station/halstead-lab/yose_amphibian_occ_code_release)**
_Updated: 2023-01-20T16:07:36.812Z_
 ___
 **[WERC / Dixon_Field_Station / Halstead-lab / dixie-valley-toad-dynamic-occupancy](https://code.usgs.gov/werc/dixon-field-station/halstead-lab/dixie-valley-toad-dynamic-occupancy)**
_Updated: 2022-08-29T13:08:12.543Z_
 
Code to fit a dynamic multi-state occupancy model to survey data for Dixie Valley Toads (Anaxyrus williamsi)
 ___
 **[WERC / Dixon_Field_Station / Halstead-lab / san-francisco-gartersnake-cmr](https://code.usgs.gov/werc/dixon-field-station/halstead-lab/san-francisco-gartersnake-cmr)**
_Updated: 2022-07-08T21:49:51.038Z_
 
Code to analyze Capture-Mark-Recapture data of San Francisco gartersnakes (Thamnophis sirtalis tetrataenia) by fitting growth and survival models.
 ___
 **[WERC / henderson-field-station / mojave-seed-menus](https://code.usgs.gov/werc/henderson-field-station/mojave-seed-menus)**
_Updated: 2022-04-14T22:42:44.362Z_
 
Mojave Seed Menus is a Shiny application that creates suitable seed lists for restoration sites in the Mojave Desert. 
 ___
 **[WERC / redwood_field_station / poscrptR](https://code.usgs.gov/werc/redwood_field_station/poscrptr)**
_Updated: 2021-01-28T16:44:49.023Z_
 
R package that exports a shiny app which predicts post-fire conifer regeneration.
 ___
 **[WIM / WQ_HUC_reports](https://code.usgs.gov/WiM/WQ_HUC_reports)**
_Updated: 2023-02-03T19:41:25.017Z_
_Tags: R | water quality_
 
Generate water-quality reports for wildlife refuge boundaries, or user-defined HUC boundaries. See https://rconnect.usgs.gov/wqReport/ for more information.
 ___
 **[Water / Analysis Tools / DVstats](https://code.usgs.gov/water/analysis-tools/DVstats)**
_Updated: 2022-10-12T19:27:39.873Z_
 ___
 **[Water / Analysis Tools / Rainmaker](https://code.usgs.gov/water/analysis-tools/Rainmaker)**
_Updated: 2022-12-29T18:47:59.997Z_
 
Instantaneous rainfall data processing for defining event periods, determination of antecedent rainfall conditions and X-hr intensities. Provides graphical display of instantaneous rainfall with event periods and hydrographs.
 ___
 **[Water / Analysis Tools / SampleSplitting](https://code.usgs.gov/water/analysis-tools/SampleSplitting)**
_Updated: 2022-10-12T21:24:10.777Z_
 
package for use in splitting flow-weighted samples
 ___
 **[Water / Analysis Tools / USGSHydroOpt](https://code.usgs.gov/water/analysis-tools/USGSHydroOpt)**
_Updated: 2022-10-12T21:17:19.196Z_
 
Tools for hydrologic optical analysis
 ___
 **[Water / Analysis Tools / USGSHydroTools](https://code.usgs.gov/water/analysis-tools/USGSHydroTools)**
_Updated: 2022-10-12T21:20:43.819Z_
 
Compilation of tools to aid in hydrologic and water quality analysis.
 ___
 **[Water / Analysis Tools / restrend](https://code.usgs.gov/water/analysis-tools/restrend)**
_Updated: 2022-10-12T19:30:08.463Z_
 ___
 **[Water / Analysis Tools / smwrBase](https://code.usgs.gov/water/analysis-tools/smwrBase)**
_Updated: 2022-10-12T18:36:24.040Z_
 
Base USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrData](https://code.usgs.gov/water/analysis-tools/smwrData)**
_Updated: 2022-10-12T18:57:08.182Z_
 
Data sets as data.frames and as text files for examples in the USGS core pacakges
 ___
 **[Water / Analysis Tools / smwrGraphs](https://code.usgs.gov/water/analysis-tools/smwrGraphs)**
_Updated: 2022-10-12T19:32:38.848Z_
 
Graphical USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrQW](https://code.usgs.gov/water/analysis-tools/smwrQW)**
_Updated: 2022-10-12T19:34:26.379Z_
 
Water quality USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrStats](https://code.usgs.gov/water/analysis-tools/smwrStats)**
_Updated: 2022-10-12T20:21:27.274Z_
 
Statistic USGS water science R functions.
 ___
 **[Water / COGG / Salinity / fruitvale](https://code.usgs.gov/water/cogg/salinity/fruitvale)**
_Updated: 2018-09-27T22:08:51.950Z_
 
Groundwater TDS model for the Fruitvale and Rosedale Ranch oil fields, Kern County, California.
 ___
 **[Water / EDEN / CSI](https://code.usgs.gov/water/eden/CSI)**
_Updated: 2023-01-31T15:27:10.832Z_
 
Import timeseries in various formats; interpolate missing data; calculate CSI and related metrics; output CSV and graphical representations.
 ___
 **[Water / EDEN / EDEN](https://code.usgs.gov/water/eden/eden)**
_Updated: 2022-12-16T16:45:29.088Z_
 ___
 **[Water / EGRET](https://code.usgs.gov/water/EGRET)**
_Updated: 2023-02-03T21:01:50.271Z_
_Tags: rstats_
 
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):
https://rconnect.usgs.gov/EGRET/
 ___
 **[Water / EGRETci](https://code.usgs.gov/water/EGRETci)**
_Updated: 2023-01-23T22:04:43.551Z_
 
A bootstrap method for estimating uncertainty of water quality trends
 ___
 **[Water / ESPD / HGB / 1DTempPro](https://code.usgs.gov/water/espd/hgb/1dtemppro)**
_Updated: 2020-05-21T17:59:47.077Z_
 
USGS 1DTempPro is a computer program for analysis of vertical one-dimensional (1D) temperature profiles
 ___
 **[Water / ESPD / HGB / DTSGUI](https://code.usgs.gov/water/espd/hgb/DTSGUI)**
_Updated: 2019-12-10T14:16:16.532Z_
 ___
 **[Water / ESPD / HGB / FLASH](https://code.usgs.gov/water/espd/hgb/flash)**
_Updated: 2020-05-21T18:02:53.874Z_
 
FLASH: A Computer Program for Flow-Log Analysis of Single Holes
 ___
 **[Water / ESPD / HGB / FLASH-R](https://code.usgs.gov/water/espd/hgb/flash-r)**
_Updated: 2020-04-03T17:32:47.006Z_
 
FLASH-R (Flow-Log Analysis of Single Holes) is an R app for the analysis of borehole vertical flow logs to estimate fracture (or layer) transmissivities and far-field hydraulic heads.
 ___
 **[Water / ESPD / HGB / FRGT](https://code.usgs.gov/water/espd/hgb/frgt)**
_Updated: 2020-05-21T18:01:53.241Z_
 
The Fractured Rock Geophysical Toolbox Method Selection Tool (FRGT-MST) is an Excel-based tool for identification of geophysical methods most likely to be appropriate for project goals and site conditions.
 ___
 **[Water / ESPD / HGB / GW-SW-MST](https://code.usgs.gov/water/espd/hgb/gw-sw-mst)**
_Updated: 2022-06-28T03:38:25.709Z_
 
The Groundwater - Surface Water Method Selection Tool (GW-SW MST) is designed to assist project scientists and engineers in selecting data collection methods that (1) satisfy study goals, and (2) are feasible for application at a given site.
 ___
 **[Water / ESPD / HGB / MoisturEC](https://code.usgs.gov/water/espd/hgb/moisturec)**
_Updated: 2020-05-21T18:03:18.040Z_
 
MoisturEC: R-based GUI to combine electrical conductivity data with point moisture measurements
 ___
 **[Water / ESPD / HGB / SEER](https://code.usgs.gov/water/espd/hgb/seer)**
_Updated: 2020-05-21T18:01:27.521Z_
 
Scenario Evaluator for Electrical Resistivity (SEER) is an Excel-based decision support tool to assess the likely outcome of using 2D electrical resistivity imaging for site characterization and remediation monitoring.
 ___
 **[Water / EflowStats](https://code.usgs.gov/water/eflowstats)**
_Updated: 2022-10-19T02:39:48.762Z_
 ___
 **[Water / Elapsed Time  for Casing Storage Elimination](https://code.usgs.gov/water/elapsed-time-for-casing-storage-elimination)**
_Updated: 2020-08-04T18:50:27.560Z_
 
An open source spreadsheet for Estimation of the Ellapsed Time for Casing Storage Effects on Drawdown to be Eliminated for Single-Well Pumping Test Analysis
 ___
 **[Water / Equivalent Fresh Groundwater Head for Potentiometric Maps](https://code.usgs.gov/water/equivalent-fresh-groundwater-head-for-potentiometric-maps)**
_Updated: 2019-04-10T16:05:14.198Z_
 
Open source spreadsheet for general use for calculation of equivalent freshwater altitude at wells where the water quality data indicate the well is tapping brackish <10,000 ppm chloride to use for potentiometric maps.
 ___
 **[Water / Hydrologic Toolbox](https://code.usgs.gov/water/hydrologic-toolbox)**
_Updated: 2022-06-02T13:20:04.178Z_
 ___
 **[Water / Linesink-maker](https://code.usgs.gov/water/Linesink-maker)**
_Updated: 2022-07-28T00:10:45.406Z_
 ___
 **[Water / Modflow-setup](https://code.usgs.gov/water/modflow-setup)**
_Updated: 2022-09-30T17:49:45.926Z_
 
Python package for automating the setup of MODFLOW groundwater flow models.
 ___
 **[Water / NWTOPT](https://code.usgs.gov/water/NWTOPT)**
_Updated: 2022-05-27T00:16:47.820Z_
 ___
 **[Water / Oklahoma-Texas Water Science Center / InFRM FDST Toolbox](https://code.usgs.gov/water/OTWSC/infrm-fdst-toolbox)**
_Updated: 2022-07-05T19:04:57.518Z_
 
Geoprocessing Toolbox for the InFRM Flood Decision Support Toolbox
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 **[Water / PAT](https://code.usgs.gov/water/pat)**
_Updated: 2020-11-19T18:19:32.039Z_
_Tags: groundwater sampling | in-well flow | pumping | well chemistry_
 
Purge Analyzer Tool - For computation of in-well time of travel of groundwater under pumping conditions
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 **[Water / PHREEQ / PHREEQ-N-AMDTreat+REYs](https://code.usgs.gov/water/phreeq/phreeq-n-amdtreat-reys)**
_Updated: 2022-12-23T00:15:27.830Z_
_Tags: acid mine drainage | rare-earth elements | water quality_
 
The interactive PHREEQ-N-AMDTreat+REYs water-quality modeling tools simulate changes in the concentrations of rare-earth elements plus yttrium (REYs) and associated solutes in response to variations in the solution composition, the composition and availability of hydrous-metal-oxide (HMeO) sorbent, and the potential for solids to precipitate. 
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 **[Water / PHREEQ-N-AMDTreat](https://code.usgs.gov/water/phreeq-n-amdtreat)**
_Updated: 2022-09-06T16:06:46.684Z_
 
The executable PHREEQ-N-AMDTreat code uses PHREEQC with a customized user-interface developed with Visual Studio 2019 to simulate water-quality effects resulting from treatment of acid mine drainage. 
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 **[Water / PHREEQ-N-Titration-PO4-Adsorption](https://code.usgs.gov/water/phreeq-n-titration-po4-adsorption)**
_Updated: 2022-12-23T03:09:24.731Z_
_Tags: PHREEQC | adsorption | hydrous aluminum oxide | hydrous ferric oxide | hydrous manganese oxide | pH | phosphate | precipitation_
 
Two complementary water-quality modeling tools (CausticTitration_PO4mg.exe, CausticTitration_PO4moles.exe) simulate equilibrium processes that may attenuate dissolved concentrations of phosphate plus associated solutes.
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 **[Water / PSLoadEsT](https://code.usgs.gov/water/psloadest)**
_Updated: 2021-05-12T15:26:30.056Z_
 
A user-friendly interface for generating reproducible load calculations for point source dischargers while managing common data challenges including duplicates, incompatible input tables, and missing nutrient concentration or effluent flow data.
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 **[Water / RESTORE / Geospatial layers in R](https://code.usgs.gov/water/restore/aregis)**
_Updated: 2023-01-18T14:41:58.434Z_
_Tags: Gulf Coast Ecosystem Restoration Council | gis | spatial analysis in R_
 
Geospatial layers transformed to R language spatial objects for RESTORE project scripting convenience.
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 **[Water / RESTORE / fdclmrpplo](https://code.usgs.gov/water/restore/fdclmrpplo)**
_Updated: 2021-07-15T17:43:09.187Z_
_Tags: L-moments | Lmoments | Tobit | censored data | flow-duration curve | generalized additive model | huc12 | level-12 hydrologic unit code | streamflow_
 
Source code for estimation of L-moments and percent no-flow conditions for decadal flow-duration curves and estimation at level-12 hydrologic unit codes along with other statistical computations
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 **[Water / RESTORE / scNIDaregis](https://code.usgs.gov/water/restore/scNIDaregis)**
_Updated: 2022-01-27T17:53:55.397Z_
_Tags: Arkansas | Colorado | Kansas | Louisiana | Missouri | National Inventory of Dams | New Mexico | Oklahoma | Texas | reservoir storage | water resources_
 
scNIDaregis—Geospatial Processing of Selected Components of the National Inventory of Dams with a State-Level Aggregation Scheme and Post-Processing Features for Basin-Specific Tabulation
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 **[Water / RESTORE / syntheticdv2lff](https://code.usgs.gov/water/restore/syntheticdv2lff)**
_Updated: 2022-10-14T18:33:23.486Z_
_Tags: Pearson type III | QppQ | hydrograph | log Pearson type III | low flow | low flow frequency | unit values_
 
RESTORE/syntheticdv2lff—Low-streamflow (low-flow) frequency (LFF) estimation from synthetic daily mean streamflow with bias correction estimated at level-12 hydrologic unit code (HUC12) pour points in the southern and southeastern United States
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 **[Water / SCALP](https://code.usgs.gov/water/SCALP)**
_Updated: 2023-01-25T16:26:18.892Z_
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 **[Water / SFRmaker](https://code.usgs.gov/water/SFRmaker)**
_Updated: 2022-07-28T00:10:45.799Z_
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 **[Water / Sed_SAT](https://code.usgs.gov/water/sed_sat)**
_Updated: 2020-03-09T13:19:36.019Z_
 
Sed_SAT is a user-friendly statistical model that guides the user through the necessary steps in order to quantify the relative contributions of sediment sources in a given watershed. 
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 **[Water / ToxMixtures](https://code.usgs.gov/water/toxmixtures)**
_Updated: 2022-04-15T18:19:21.441Z_
_Tags: rstats_
 
R-package to explore chemical mixtures on toxicity
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 **[Water / Transit-Loss](https://code.usgs.gov/water/Transit-Loss)**
_Updated: 2018-12-19T17:47:09.498Z_
 
Modernization of a FORTRAN77 transit-loss accounting program developed by the USGS to estimate net reusable flows in Fountain and Monument Creeks in El Paso and Pueblo Counties, Colorado to FORTRAN 2003 standard.  
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 **[Water / WREG](https://code.usgs.gov/water/WREG)**
_Updated: 2022-08-30T15:52:34.523Z_
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 **[Water / WRTPS](https://code.usgs.gov/water/WRTPS)**
_Updated: 2022-12-22T20:19:15.907Z_
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 **[Water / WSC / bulk_hvsR](https://code.usgs.gov/water/wsc/bulk_hvsR)**
_Updated: 2022-12-19T18:07:49.372Z_
 
bulk_hvsR.r is an R-script to automate processing and plotting passive seismic HVSR (Horizontal to Vertical Spectral Ratio) datasets.
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 **[Water / WSC / softwSIR20205086](https://code.usgs.gov/water/wsc/softwSIR20205086)**
_Updated: 2021-03-22T15:39:28.419Z_
_Tags: Texas | bankfull | ecological region | ecoregion | hydraulic properties | streamflow_
 
Companion software to USGS SIR 2020–5086.
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 **[Water / climb8](https://code.usgs.gov/water/climb8)**
_Updated: 2022-06-30T00:10:17.798Z_
 
An R Package For Querying and Joining Climate or Meteorological Data
With USGS Hydrologic Data
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 **[Water / compHydros](https://code.usgs.gov/water/comphydros)**
_Updated: 2020-03-10T20:11:40.898Z_
 
Composite hydrographs for groundwater principle aquifers.
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 **[Water / dataRetrieval](https://code.usgs.gov/water/dataRetrieval)**
_Updated: 2023-02-01T15:05:03.375Z_