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# USGS Public Project Explorer

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 **[ABAM_project / ABAM_package](https://code.usgs.gov/abam/abam_package)**
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_Updated: 2023-02-02T23:56:07.918Z_
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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)**
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_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)**
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_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)**
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_Updated: 2023-02-06T23:25:43.820Z_
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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)**
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_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)**
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_Updated: 2021-04-29T22:59:46.917Z_
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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)**
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_Updated: 2022-08-18T21:55:49.327Z_
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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)**
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_Updated: 2022-12-24T13:04:51.929Z_
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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)**
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_Updated: 2022-11-12T12:15:02.107Z_
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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)**
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_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)**
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_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)**
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_Updated: 2022-05-01T00:10:29.747Z_
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 **[CCH / DSAS](https://code.usgs.gov/cch/dsas)**
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_Updated: 2022-02-10T19:04:21.639Z_
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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)**
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_Updated: 2019-11-08T20:04:11.803Z_
_Tags: Conjunctive Use | Fortran | Integrated Hydrologic Modeling | MF-OWHM | MODFLOW | MODFLOW-OWHM | Numerical Simulation | OneWater_
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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)**
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_Updated: 2021-03-09T15:40:49.330Z_
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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)**
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_Updated: 2023-01-25T18:08:14.346Z_
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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)**
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_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)**
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_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)**
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_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)**
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_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)**
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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)**
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_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)**
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_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)**
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_Updated: 2022-10-28T15:24:34.574Z_
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 **[DevOps / Images](https://code.usgs.gov/devops/images)**
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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)**
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_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)**
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_Updated: 2022-09-21T02:10:32.049Z_
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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)**
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_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)**
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_Updated: 2021-07-21T19:26:15.255Z_
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 **[FluEgg / fluegg](https://code.usgs.gov/FluEgg/fluegg)**
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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)**
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_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)**
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_Updated: 2023-01-25T18:10:35.704Z_
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 **[GMEGSC / ibluff](https://code.usgs.gov/gmegsc/ibluff)**
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_Updated: 2022-11-03T20:40:56.423Z_
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 **[Genetics for Western Restoration and Conservation / popmaps](https://code.usgs.gov/GWRC/popmaps)**
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_Updated: 2022-11-03T20:43:20.334Z_
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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)**
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_Updated: 2023-01-31T20:03:15.840Z_
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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)**
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HyMETT R package
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 **[INLPO / ObsNetQW](https://code.usgs.gov/inl/obsnetqw)**
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_Updated: 2021-07-19T16:52:08.787Z_
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Assessment of a water-quality aquifer monitoring network
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 **[INLPO / inldata](https://code.usgs.gov/inl/inldata)**
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_Updated: 2023-01-31T01:48:07.239Z_
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Collection of datasets for the USGS-INL aquifer monitoring networks
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 **[INLPO / inlpubs](https://code.usgs.gov/inl/inlpubs)**
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_Updated: 2022-10-27T06:57:16.694Z_
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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)**
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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)**
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_Updated: 2022-03-17T14:10:32.021Z_
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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)**
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_Updated: 2022-06-01T00:10:42.101Z_
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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)**
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_Updated: 2021-05-13T23:09:04.057Z_
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 **[MAKB / MapKB Docker Container](https://code.usgs.gov/makb/mapkb-docker-container)**
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_Updated: 2021-05-14T17:03:51.032Z_
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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)**
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_Updated: 2022-07-25T18:12:23.097Z_
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_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.
368
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 **[Mississippi Alluvial Plain / gw / GW Level Stat Models / covMRVAgen1](https://code.usgs.gov/map/gw/levs/covMRVAgen1)**
370
_Updated: 2023-02-04T15:44:50.406Z_
371
 
372
Generation 1 series of statistical modeling of water levels in the Mississippi River Valley alluvial aquifer, Mississippi River alluvial plain.
373
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374
 **[Mississippi Alluvial Plain / gw / Groundwater informatics](https://code.usgs.gov/map/gw/visGWDBmrva)**
375
_Updated: 2021-03-20T13:33:23.025Z_
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_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.
379
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 **[Mississippi Alluvial Plain / maprandomforest](https://code.usgs.gov/map/maprandomforest)**
_Updated: 2021-06-08T18:06:38.808Z_
382
383
384
385
386
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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.
387
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 **[NPWRC-R / hexgrid](https://code.usgs.gov/npwrc-r/hexgrid)**
389
_Updated: 2021-07-22T17:16:39.281Z_
390
391
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_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.
393
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 **[NPWRC-R / mort](https://code.usgs.gov/npwrc-r/mort)**
395
_Updated: 2020-10-27T15:00:53.841Z_
396
397
 
R functions and tutorials: Organizing interval data and estimating cause-specific mortality.
398
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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)**
405
_Updated: 2022-06-21T15:14:55.974Z_
406
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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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412
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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
424
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 **[PRISM / prism_engine](https://code.usgs.gov/prism/prism_engine)**
426
_Updated: 2021-02-06T17:18:09.062Z_
427
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429
430
431
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 **[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.
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433
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 **[QRev / QRevPy](https://code.usgs.gov/QRev/QRevPy)**
434
_Updated: 2023-01-26T15:51:55.472Z_
435
436
 
QRev in Python
437
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 ___
 **[RSQ / RSQcomp](https://code.usgs.gov/rsq/rsqcomp)**
439
_Updated: 2022-04-21T16:20:49.223Z_
440
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443
 
RSQcomp is an R package that calculates remotely sensed discharge based on the altimdswe relationship. 
 ___
 **[RSQ / altimDSWE](https://code.usgs.gov/rsq/altimdswe)**
444
_Updated: 2022-03-31T13:25:28.832Z_
445
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altimDSWE is an R package that relates altimetry heights to dynamic surface water extent for the purposes of remote sensing large ungaged rivers. 
447
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451
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 **[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. 
452
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 **[SPCMSC / Keys Carbonate Budgets](https://code.usgs.gov/spcmsc/keys_carbonate_budgets)**
_Updated: 2022-06-07T13:16:30.952Z_
455
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 **[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_
458
459
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 **[SPCMSC / Seafloor Elevation Change Analysis Tool](https://code.usgs.gov/spcmsc/volume-and-elevation-calculation-software)**
460
_Updated: 2021-05-20T21:14:15.318Z_
461
462
 
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. 
463
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 **[SPCMSC / Subaerial Barrier Sediment Partitioning Model](https://code.usgs.gov/spcmsc/subaerial-barrier-sediment-partitioning-model)**
_Updated: 2020-10-30T17:59:03.459Z_
466
467
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 **[Science Analytics and Synthesis / BioScience / drip / drip-dash-app](https://code.usgs.gov/sas/bioscience/drip/drip-dash-app)**
468
_Updated: 2022-06-07T21:09:46.218Z_
469
470
 
A tool for exploring trends about dam removal science and querying published scientific studies that evaluate environmental response to dam removals.
471
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 **[Science Analytics and Synthesis / BioScience / drip / pydrip](https://code.usgs.gov/sas/bioscience/drip/pydrip)**
473
_Updated: 2022-03-24T18:09:42.761Z_
474
475
 
This package handles retrieval and preparation of the source data for the Dam Removal Information Portal API. 
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 **[Science Analytics and Synthesis / BioScience / wildlife-wrangler](https://code.usgs.gov/sas/bioscience/wildlife-wrangler)**
478
_Updated: 2023-02-06T22:39:44.871Z_
479
480
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 **[Science Analytics and Synthesis / BioScience / xstrm](https://code.usgs.gov/sas/bioscience/xstrm)**
481
_Updated: 2021-12-15T16:26:14.059Z_
482
 
483
A USGS software package and associated command line tool that captures universal methods for stream network summarization.  
484
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 **[Science Analytics and Synthesis / BioScience / xstrm_local](https://code.usgs.gov/sas/bioscience/xstrm_local)**
486
_Updated: 2022-10-03T20:50:47.815Z_
487
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_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).
490
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 **[Science Analytics and Synthesis / Science Data Management / Model catalog / intake](https://code.usgs.gov/sas/sdm/model-catalog/intake)**
492
_Updated: 2023-01-26T20:27:09.802Z_
493
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_Tags: metadata_
 
Model metadata that supports the USGS Model Catalog
496
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 **[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_
 
500
For active development, go to https://github.com/DOI-USGS/modelcatalog-tam. 
501
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 **[Science Analytics and Synthesis / Science Data Management / publink](https://code.usgs.gov/sas/sdm/publink)**
_Updated: 2020-08-21T21:11:55.141Z_
504
505
 ___
 **[SolVES / SolVES 4.0](https://code.usgs.gov/solves/solves-4.0)**
506
_Updated: 2022-05-25T12:27:52.697Z_
507
508
 
Source code for SolVES 4.0 developed in python as a QGIS plugin.
509
510
 ___
 **[Southwest Gravity Program / GSadjust](https://code.usgs.gov/sgp/gsadjust)**
511
_Updated: 2022-10-21T18:13:56.437Z_
512
513
 
GUI for processing gravity-survey data
514
515
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 **[Southwest Gravity Program / Gravity Data Spreadsheet](https://code.usgs.gov/sgp/gravity-data-spreadsheet)**
516
_Updated: 2021-02-24T14:48:26.913Z_
517
518
 
Excel Workbooks for collecting relative-gravity data 
519
520
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 **[StreamStats / Data Preparation / CPG / FCPGtools](https://code.usgs.gov/StreamStats/data-preparation/cpg/FCPGtools)**
521
_Updated: 2023-02-06T20:09:22.734Z_
522
 
523
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
524
525
 ___
 **[StreamStats / Data Preparation / DataPrepTools](https://code.usgs.gov/StreamStats/data-preparation/datapreptools)**
526
_Updated: 2023-02-02T17:50:52.248Z_
527
528
529
530
 
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)**
531
_Updated: 2023-01-03T21:51:05.328Z_
532
533
 
Peak Flow Frequency R EXtensions
534
535
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 **[StreamStats / Web Services and APIs / ChannelWeighting](https://code.usgs.gov/StreamStats/web-services-and-apis/ChannelWeighting)**
536
_Updated: 2023-01-01T00:10:09.549Z_
537
538
 
StreamStats Channel Width Weighting Services
539
540
 ___
 **[StreamStats / Web Services and APIs / GageStatsServices](https://code.usgs.gov/StreamStats/web-services-and-apis/GageStatsServices)**
541
_Updated: 2023-02-02T15:21:28.164Z_
542
543
544
545
546
 ___
 **[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
547
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549
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551
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553
 ___
 **[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)**
554
_Updated: 2020-10-16T13:21:39.256Z_
555
556
557
558
 
A collection of fisheries models coded in Stan.
 ___
 **[UMESC / introduction_to_r](https://code.usgs.gov/umesc/introduction_to_r)**
559
_Updated: 2020-11-16T14:39:27.245Z_
560
561
562
563
 
Introduction to R tutorial. 
 ___
 **[UMESC / occupancy_correlated_error](https://code.usgs.gov/umesc/occupancy_correlated_error)**
564
_Updated: 2020-11-16T14:31:56.155Z_
565
566
 
This project presents an occupancy model with correlated error structure. 
567
568
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 **[UMESC / quant-ecology / Carp Demographic Rates](https://code.usgs.gov/umesc/quant-ecology/carp_demographic_rates)**
569
_Updated: 2022-02-28T21:31:34.388Z_
570
571
 
Fits hierarchical models to carp data.
572
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 **[UMESC / quant-ecology / Monosex control within integrated pest management](https://code.usgs.gov/umesc/quant-ecology/monosex-control-within-integrated-pest-management)**
574
_Updated: 2023-01-25T18:32:03.602Z_
575
576
 ___
 **[UMESC / quant-ecology / SEICarP Application](https://code.usgs.gov/umesc/quant-ecology/seicarp-application)**
577
_Updated: 2022-11-01T15:02:46.016Z_
578
579
580
581
 
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)**
582
_Updated: 2022-09-13T16:44:16.540Z_
583
584
 
Spatially Explicit Invasive Carp Population (SEICarP) for the Illinois River
585
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 ___
 **[UMESC / quant-ecology / YY-male life history](https://code.usgs.gov/umesc/quant-ecology/yy-male-life-history)**
587
_Updated: 2022-06-29T15:20:07.944Z_
588
589
 ___
 **[UMESC / quant-ecology / biolake](https://code.usgs.gov/umesc/quant-ecology/biolake)**
590
_Updated: 2022-10-26T14:18:13.059Z_
591
592
 ___
 **[UMESC / quant-ecology / climatchR](https://code.usgs.gov/umesc/quant-ecology/climatchr)**
593
_Updated: 2023-01-30T02:31:09.827Z_
594
595
 
An R implementation of Climatch (https://climatch.cp1.agriculture.gov.au/).
596
597
 ___
 **[UMESC / quant-ecology / climatchr_htcondor](https://code.usgs.gov/umesc/quant-ecology/climatchr_htcondor)**
598
_Updated: 2022-01-10T15:50:59.755Z_
599
600
 ___
 **[UMESC / quant-ecology / ecotoxicology_hierarhcial_data](https://code.usgs.gov/umesc/quant-ecology/ecotoxicology_hierarhcial_data)**
601
_Updated: 2022-03-29T18:08:50.207Z_
602
603
 ___
 **[UMESC / quant-ecology / fishStan](https://code.usgs.gov/umesc/quant-ecology/fishstan)**
604
_Updated: 2022-06-09T16:54:54.974Z_
605
606
 
Version 2+ of the fishStan package.
607
608
 ___
 **[UMESC / quant-ecology / metaipm](https://code.usgs.gov/umesc/quant-ecology/metaipm)**
609
_Updated: 2023-02-04T15:20:40.368Z_
610
611
 
A Meta-population Integral Projection Model
612
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 **[UMESC / quant-ecology / metaipm-example](https://code.usgs.gov/umesc/quant-ecology/metaipm-example)**
614
_Updated: 2022-09-22T19:21:00.851Z_
615
616
 ___
 **[UMESC / quant-ecology / occStan](https://code.usgs.gov/umesc/quant-ecology/occstan)**
617
_Updated: 2022-09-08T17:46:01.378Z_
618
619
 
Occupancy modeling with Stan
620
621
 ___
 **[UMESC / quant-ecology / occStan_hm](https://code.usgs.gov/umesc/quant-ecology/occstan_hm)**
622
_Updated: 2022-10-12T18:38:04.094Z_
623
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 ___
 **[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_
626
627
 ___
 **[UMESC / quant-ecology / stats_code / Indiana mussel metabolomics data analysis](https://code.usgs.gov/umesc/quant-ecology/stats_code/mussel-metabolomics)**
628
_Updated: 2023-01-25T14:18:36.707Z_
629
630
 ___
 **[UMESC / quant-ecology / stats_code / sudan_black](https://code.usgs.gov/umesc/quant-ecology/stats_code/sudan_black)**
631
_Updated: 2022-10-13T16:08:20.114Z_
632
633
 ___
 **[UMESC / wthogmartin / BatTool](https://code.usgs.gov/umesc/wthogmartin/BatTool)**
634
_Updated: 2022-09-14T15:51:53.015Z_
635
636
 
Bat Population Projection Using Demographic Modeling with Shiny Application
637
638
 ___
 **[USGS Fortran / Batteries Included Fortran Library](https://code.usgs.gov/fortran/bif)**
639
_Updated: 2023-02-02T01:37:55.358Z_
640
641
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643
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645
 
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#-)
646
647
 ___
 **[USGS MODFLOW / MODFLOW One-Water Hydrologic Flow Model](https://code.usgs.gov/modflow/mf-owhm)**
648
_Updated: 2023-02-02T02:42:50.845Z_
649
_Tags: Conjunctive Use | Fortran | Integrated Hydrologic Modeling | MF-OWHM | MODFLOW | MODFLOW-OWHM | Numerical Simulation | OWHM | OneWater_
650
 
651
MODFLOW OWHM Official Download and Source Repository
652

653
**For download links and background info go to the [README](https://code.usgs.gov/modflow/mf-owhm#-)**
654

655
or scroll down until you see the MF-OWHM banner
656
657
 ___
 **[VSC / Publications / Flinders_A / H2-seafloor-estimator](https://code.usgs.gov/vsc/publications/flinders_a/H2-seafloor-estimator)**
658
_Updated: 2020-09-16T20:17:46.006Z_
659
660
661
_Tags: oceanography | planetary science_
 
Supplemental Materials for;
662
Sauvage, J. F., et al. The contribution of water radiolysis to marine sedimentary life, Nature Communications (submitted) (2020).
663
664
 ___
 **[VSC / Publications / gTOOLS](https://code.usgs.gov/vsc/publications/gtools)**
665
_Updated: 2023-01-24T08:07:33.342Z_
666
667
 ___
 **[VSC / Swarm](https://code.usgs.gov/vsc/swarm)**
668
_Updated: 2021-03-25T23:51:47.105Z_
669
670
 
A Java application designed to display and analyze seismic waveforms in real-time. See http://volcanoes.usgs.gov/software/swarm.
671
672
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674
675
676
677
678
679
680
 ___
 **[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)**
681
_Updated: 2023-02-06T17:27:40.035Z_
682
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684
685
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688
_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)**
689
_Updated: 2021-05-06T15:28:04.166Z_
690
691
692
693
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695
 
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.

696
697
 ___
 **[VTCFWRU / shinymgr](https://code.usgs.gov/vtcfwru/shinymgr)**
698
_Updated: 2022-09-18T14:57:31.327Z_
699
700
 
A framework for building, managing, and stitching shiny modules into reproducible workflows 
701
702
 ___
 **[WARC / JEM / models / jem_netcdf_r](https://code.usgs.gov/warc/jem/models/jem_netcdf_r)**
703
_Updated: 2023-02-01T21:06:33.583Z_
704
705
 
R-language code library to support NetCDF I/O. 
706
707
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / SMaRT](https://code.usgs.gov/werc/dixon-field-station/coates-lab/smart)**
708
_Updated: 2022-03-24T21:51:44.595Z_
709
710
 
Science-based Management of Ravens Tool
711
712
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / raventools](https://code.usgs.gov/werc/dixon-field-station/coates-lab/raventools)**
713
_Updated: 2022-06-15T20:48:40.128Z_
714
715
 
spatial data and functions for the Science-based Management of Ravens (SMaRT) application
716
717
 ___
 **[WERC / Dixon_Field_Station / Coates-lab / rsgis](https://code.usgs.gov/werc/dixon-field-station/coates-lab/rsgis)**
718
_Updated: 2022-06-15T21:19:41.098Z_
719
720
 
Package containing spatial data for sage-grouse tools
721
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723
 ___
 **[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_
724
725
 ___
 **[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)**
726
_Updated: 2022-08-29T13:08:12.543Z_
727
728
 
Code to fit a dynamic multi-state occupancy model to survey data for Dixie Valley Toads (Anaxyrus williamsi)
729
730
 ___
 **[WERC / Dixon_Field_Station / Halstead-lab / san-francisco-gartersnake-cmr](https://code.usgs.gov/werc/dixon-field-station/halstead-lab/san-francisco-gartersnake-cmr)**
731
_Updated: 2022-07-08T21:49:51.038Z_
732
733
 
Code to analyze Capture-Mark-Recapture data of San Francisco gartersnakes (Thamnophis sirtalis tetrataenia) by fitting growth and survival models.
734
735
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 **[WERC / henderson-field-station / mojave-seed-menus](https://code.usgs.gov/werc/henderson-field-station/mojave-seed-menus)**
736
_Updated: 2022-04-14T22:42:44.362Z_
737
738
 
Mojave Seed Menus is a Shiny application that creates suitable seed lists for restoration sites in the Mojave Desert. 
739
740
741
742
743
 ___
 **[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.
744
745
 ___
 **[WIM / WQ_HUC_reports](https://code.usgs.gov/WiM/WQ_HUC_reports)**
746
_Updated: 2023-02-03T19:41:25.017Z_
747
748
_Tags: R | water quality_
 
749
Generate water-quality reports for wildlife refuge boundaries, or user-defined HUC boundaries. See https://rconnect.usgs.gov/wqReport/ for more information.
750
751
 ___
 **[Water / Analysis Tools / DVstats](https://code.usgs.gov/water/analysis-tools/DVstats)**
752
_Updated: 2022-10-12T19:27:39.873Z_
753
754
 ___
 **[Water / Analysis Tools / Rainmaker](https://code.usgs.gov/water/analysis-tools/Rainmaker)**
755
_Updated: 2022-12-29T18:47:59.997Z_
756
757
758
759
 
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)**
760
_Updated: 2022-10-12T21:24:10.777Z_
761
762
763
764
 
package for use in splitting flow-weighted samples
 ___
 **[Water / Analysis Tools / USGSHydroOpt](https://code.usgs.gov/water/analysis-tools/USGSHydroOpt)**
765
_Updated: 2022-10-12T21:17:19.196Z_
766
767
768
769
 
Tools for hydrologic optical analysis
 ___
 **[Water / Analysis Tools / USGSHydroTools](https://code.usgs.gov/water/analysis-tools/USGSHydroTools)**
770
_Updated: 2022-10-12T21:20:43.819Z_
771
772
773
774
 
Compilation of tools to aid in hydrologic and water quality analysis.
 ___
 **[Water / Analysis Tools / restrend](https://code.usgs.gov/water/analysis-tools/restrend)**
775
_Updated: 2022-10-12T19:30:08.463Z_
776
777
 ___
 **[Water / Analysis Tools / smwrBase](https://code.usgs.gov/water/analysis-tools/smwrBase)**
778
_Updated: 2022-10-12T18:36:24.040Z_
779
780
781
782
 
Base USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrData](https://code.usgs.gov/water/analysis-tools/smwrData)**
783
_Updated: 2022-10-12T18:57:08.182Z_
784
785
 
Data sets as data.frames and as text files for examples in the USGS core pacakges
786
787
 ___
 **[Water / Analysis Tools / smwrGraphs](https://code.usgs.gov/water/analysis-tools/smwrGraphs)**
788
_Updated: 2022-10-12T19:32:38.848Z_
789
790
791
792
 
Graphical USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrQW](https://code.usgs.gov/water/analysis-tools/smwrQW)**
793
_Updated: 2022-10-12T19:34:26.379Z_
794
795
796
797
 
Water quality USGS water science R functions.
 ___
 **[Water / Analysis Tools / smwrStats](https://code.usgs.gov/water/analysis-tools/smwrStats)**
798
_Updated: 2022-10-12T20:21:27.274Z_
799
800
 
Statistic USGS water science R functions.
801
802
803
804
805
 ___
 **[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.
806
807
808
809
810
 ___
 **[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.
811
812
813
 ___
 **[Water / EDEN / EDEN](https://code.usgs.gov/water/eden/eden)**
_Updated: 2022-12-16T16:45:29.088Z_
814
815
 ___
 **[Water / EGRET](https://code.usgs.gov/water/EGRET)**
816
_Updated: 2023-02-03T21:01:50.271Z_
817
818
_Tags: rstats_
 
819
820
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/
821
822
 ___
 **[Water / EGRETci](https://code.usgs.gov/water/EGRETci)**
823
_Updated: 2023-01-23T22:04:43.551Z_
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
 
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.
849
850
 ___
 **[Water / ESPD / HGB / GW-SW-MST](https://code.usgs.gov/water/espd/hgb/gw-sw-mst)**
851
_Updated: 2022-06-28T03:38:25.709Z_
852
853
 
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.
854
855
856
857
858
859
860
861
862
863
 ___
 **[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.
864
865
866
 ___
 **[Water / EflowStats](https://code.usgs.gov/water/eflowstats)**
_Updated: 2022-10-19T02:39:48.762Z_
867
868
 ___
 **[Water / Elapsed Time  for Casing Storage Elimination](https://code.usgs.gov/water/elapsed-time-for-casing-storage-elimination)**
869
_Updated: 2020-08-04T18:50:27.560Z_
870
871
872
873
874
875
876
 
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.
877
878
879
 ___
 **[Water / Hydrologic Toolbox](https://code.usgs.gov/water/hydrologic-toolbox)**
_Updated: 2022-06-02T13:20:04.178Z_
880
881
 ___
 **[Water / Linesink-maker](https://code.usgs.gov/water/Linesink-maker)**
882
_Updated: 2022-07-28T00:10:45.406Z_
883
884
885
886
887
 ___
 **[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.
888
889
890
 ___
 **[Water / NWTOPT](https://code.usgs.gov/water/NWTOPT)**
_Updated: 2022-05-27T00:16:47.820Z_
891
892
 ___
 **[Water / Oklahoma-Texas Water Science Center / InFRM FDST Toolbox](https://code.usgs.gov/water/OTWSC/infrm-fdst-toolbox)**
893
_Updated: 2022-07-05T19:04:57.518Z_
894
895
 
Geoprocessing Toolbox for the InFRM Flood Decision Support Toolbox
896
897
 ___
 **[Water / PAT](https://code.usgs.gov/water/pat)**
898
_Updated: 2020-11-19T18:19:32.039Z_
899
900
901
_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
902
903
 ___
 **[Water / PHREEQ / PHREEQ-N-AMDTreat+REYs](https://code.usgs.gov/water/phreeq/phreeq-n-amdtreat-reys)**
904
_Updated: 2022-12-23T00:15:27.830Z_
905
906
907
_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. 
908
909
 ___
 **[Water / PHREEQ-N-AMDTreat](https://code.usgs.gov/water/phreeq-n-amdtreat)**
910
_Updated: 2022-09-06T16:06:46.684Z_
911
912
 
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. 
913
914
 ___
 **[Water / PHREEQ-N-Titration-PO4-Adsorption](https://code.usgs.gov/water/phreeq-n-titration-po4-adsorption)**
915
_Updated: 2022-12-23T03:09:24.731Z_
916
917
918
_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.
919
920
 ___
 **[Water / PSLoadEsT](https://code.usgs.gov/water/psloadest)**
921
_Updated: 2021-05-12T15:26:30.056Z_
922
923
924
925
 
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.
 ___
 **[Water / RESTORE / Geospatial layers in R](https://code.usgs.gov/water/restore/aregis)**
926
_Updated: 2023-01-18T14:41:58.434Z_
927
_Tags: Gulf Coast Ecosystem Restoration Council | gis | spatial analysis in R_
928
929
930
931
 
Geospatial layers transformed to R language spatial objects for RESTORE project scripting convenience.
 ___
 **[Water / RESTORE / fdclmrpplo](https://code.usgs.gov/water/restore/fdclmrpplo)**
932
_Updated: 2021-07-15T17:43:09.187Z_
933
_Tags: L-moments | Lmoments | Tobit | censored data | flow-duration curve | generalized additive model | huc12 | level-12 hydrologic unit code | streamflow_
934
935
 
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
936
937
 ___
 **[Water / RESTORE / scNIDaregis](https://code.usgs.gov/water/restore/scNIDaregis)**
938
_Updated: 2022-01-27T17:53:55.397Z_
939
940
941
_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
942
943
 ___
 **[Water / RESTORE / syntheticdv2lff](https://code.usgs.gov/water/restore/syntheticdv2lff)**
944
_Updated: 2022-10-14T18:33:23.486Z_
945
_Tags: Pearson type III | QppQ | hydrograph | log Pearson type III | low flow | low flow frequency | unit values_
946
947
 
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
948
949
 ___
 **[Water / SCALP](https://code.usgs.gov/water/SCALP)**
950
_Updated: 2023-01-25T16:26:18.892Z_
951
952
 ___
 **[Water / SFRmaker](https://code.usgs.gov/water/SFRmaker)**
953
_Updated: 2022-07-28T00:10:45.799Z_
954
955
956
957
958
959
960
 ___
 **[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. 
 ___
 **[Water / ToxMixtures](https://code.usgs.gov/water/toxmixtures)**
961
_Updated: 2022-04-15T18:19:21.441Z_
962
963
964
965
966
967
968
969
_Tags: rstats_
 
R-package to explore chemical mixtures on toxicity
 ___
 **[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.  
970
971
 ___
 **[Water / WREG](https://code.usgs.gov/water/WREG)**
972
_Updated: 2022-08-30T15:52:34.523Z_
973
974
 ___
 **[Water / WRTPS](https://code.usgs.gov/water/WRTPS)**
975
_Updated: 2022-12-22T20:19:15.907Z_
976
977
 ___
 **[Water / WSC / bulk_hvsR](https://code.usgs.gov/water/wsc/bulk_hvsR)**
978
_Updated: 2022-12-19T18:07:49.372Z_
979
980
 
bulk_hvsR.r is an R-script to automate processing and plotting passive seismic HVSR (Horizontal to Vertical Spectral Ratio) datasets.
981
982
 ___
 **[Water / WSC / softwSIR20205086](https://code.usgs.gov/water/wsc/softwSIR20205086)**
983
_Updated: 2021-03-22T15:39:28.419Z_
984
985
986
_Tags: Texas | bankfull | ecological region | ecoregion | hydraulic properties | streamflow_
 
Companion software to USGS SIR 2020–5086.
987
988
 ___
 **[Water / climb8](https://code.usgs.gov/water/climb8)**
989
_Updated: 2022-06-30T00:10:17.798Z_
990
991
992
 
An R Package For Querying and Joining Climate or Meteorological Data
With USGS Hydrologic Data
993
994
995
996
997
998
999
 ___
 **[Water / compHydros](https://code.usgs.gov/water/comphydros)**
_Updated: 2020-03-10T20:11:40.898Z_
 
Composite hydrographs for groundwater principle aquifers.
 ___
 **[Water / dataRetrieval](https://code.usgs.gov/water/dataRetrieval)**
1000
_Updated: 2023-02-01T15:05:03.375Z_
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