AndreaBozzo/ceres-open-data-index huggingface dataset:
Evaluating a tandem human-machine approach to labelling of wildlife in remote camera monitoring

Remote cameras (“trail cameras”) are a popular tool for non-invasive, continuous wildlife monitoring, and as they become more prevalent in wildlife research, machine learning (ML) is increasingly used to automate or accelerate the labor-intensive process of labelling (i.e., tagging) photos. Human-machine hybrid tagging approaches have been shown to greatly increase tagging efficiency (i.e., time to tag a single image). However, those potential increases hinge on the extent to which an ML model makes correct vs. incorrect predictions. We performed an experiment using a ML model that produces bounding boxes around animals, people, and vehicles in remote camera imagery (MegaDetector), to consider the impact of a ML model’s performance on its ability to accelerate human labeling. Six participants tagged trail camera images collected from 12 sites in Vermont and Maine, USA (January-September 2022) using three tagging methods (one with ML bounding box assistance and two without assistance).

Tags: biota, camera-trap, data-labelling, machine-learning, maine, tagging, trail-camera, usgs-64da3a38d34ef477cf3edf0e, vermont, wildlife-monitoring
Organization: Department of the Interior
Dissolved gas solubility calculations for groundwater samples collected in the Umatilla River basin, Oregon, 2014–2019

These data are solubility calculations for dissolved gases in groundwater samples collected to support a U.S. Geological Survey study to estimate the timing and source of recharge to the basalt groundwater system in the Umatilla River basin, Oregon. The software package Dissolved Gas Modeling and Environmental Tracer Analysis (DGEMTA; Jurgens and others, 2020) was used to develop the solubility calculations. DGMETA produces estimates of dissolved gas concentrations during recharge as well as estimates of recharge temperature, excess air, and excess nitrogen gas concentrations by optimizing the solutions of solubility equations for multiple gases dissolved in samples of groundwater. These data were collected during August 26, 2014 – April 16, 2019. Data are in .csv file format.
Reference cited: Jurgens, B.C., Böhlke, J., Haase, K., Busenberg, E., Hunt, A.G., and Hansen, J.A., 2020, DGMETA (version 1) - Dissolved gas modeling and environmental tracer analysis computer program: U.S. Geological Survey Techniques and Methods 4-F5, 50 p., https://doi.org/10.3133/tm4F5.

Tags: dissolved-gases, geochemistry, holocene, hydrogeology, oregon, pleistocene, umatilla, usgs-64d6b5dcd34ef477cf3e1910, water-quality
Organization: Department of the Interior
Discrete geochemical data for groundwater and surface water samples in the Umatilla River basin, 2014–2022

These data are chemical analyses of discrete samples of groundwater, stream base flow, and springs collected to support a U.S. Geological Survey study to estimate the timing and source of recharge to the basalt groundwater system in the Umatilla River basin, Oregon. Categories of data include: (1) site information (2) field measurements, (3) tracers of groundwater age and source, and (4) dissolved noble gases. These data were collected during August 26, 2014 – September 13, 2022. Data are in .csv file format.

Tags: geochemistry, geoscientificinformation, groundwater-geochemistry, isotope-geochemistry, usgs-64d6b167d34ef477cf3e18f4
Organization: Department of the Interior
Geochemistry and High-Resolution Backscattered Electron Imaging of Meteor Crater Impact Melts

Utilizing the USGS Meteor Crater Sample Collection, we sampled impact melt particles for geochemical and textural characterization using a scanning electron microscope and electron microprobe. Samples were collected from a range of different depths and distances from the crater rim, all within the proximal ejecta blanket. By using the Meteor Crater Sample Collection, in which all samples have known geospatial locations, we are able to quantify the spatial relationship and variability between mixing of melted target rocks and the Canyon Diablo meteorite. Presented here are high-resolution backscattered electron images of all analyzed impact melt particles, and geochemical data for glass and individual mineral phases within the particles.

Tags: arizona, canyon-diablo, ejecta-blanket, geochemistry, geoscientificinformation, impact-cratering, impact-melt, meteor-crater, usgs-64d672a0d34ef477cf3e135a
Organization: Department of the Interior
Capture data and SNP genotypes to evaluate subspecies range boundaries of the Bell’s vireo (Vireo bellii pusillus and V. b. arizonae)(2010-2022)

Genetic samples in the form of a small blood sample were collected from 263 Bell’s vireos (Vireo bellii) in drainages throughout southern and central California, Arizona, southern Nevada, and southwestern Utah.  We used population genomic techniques to delineate the range limit between the Least Bell’s Vireo (V. b. pusillus) and its conspecific geographical neighbor, the Arizona Bell’s Vireo (V. b. arizonae). This study provides a taxonomic classification of individuals sampled where the two subspecies meet. Moreover, it allows an estimate of genetic diversity and trends in both taxa, estimates sources and levels of dispersal and gene flow among drainages, and allows us to assess progress of recovery and effectiveness of actions across different population units.  This dataset presents location, age, sex, and morphometric data gathered for the vireos from which we collected genetic samples. 
We also include a genomic dataset from 317 individuals comprised of both the Least Bell’s Vireo and Arizona Bell’s Vireo collected in southern California, Arizona, Neveda, and Utah (USA). The genotypes for all samples are provided in a VCF file with 10,571 independent single nucleotide polymorphism (SNP) variants for population genetic analyses  with 2.9 percent missing data overall. A companion CSV file is provided with sample names and occurrence designations.

Tags: arizona, biota, california, capturing-animals, dna-sequencing, endangered-species, genetics, genomic, nevada, usgs-64d5827bd34ef477cf3d221d, utah
Organization: Department of the Interior
Pliocene Model Intercomparison Project Phase 3 (PlioMIP3) Data Distribution

These files provide global coverage data describing boundary conditions for various aspects of the physical world representing several chosen times in Earth's history to be used as input data for climate modeling experiments. The raster data sets are provided in NetCDF format which is standard for climate modelling.

Tags: atmospheric-co2, biota, climatologymeteorologyatmosphere, earth-system-sensitivity, elevation, environment, geoscientificinformation, imagerybasemapsearthcover, land-ice, oceans, paleoclimate, paleoecology, paleogeography, pliocene, sea-ice, usgs-64df7f1fd34e5f6cd553baa1, vegetation
Organization: Department of the Interior
Bathymetric and supporting data for estimation of reservoir storage capacity and geomorphic change detection analysis from a multibeam bathymetric survey of Randy Poynter Lake, Rockdale County, Georgia

Rockdale County Department of Water Resources (RCDWR) has a mission to update estimates of the reservoir storage capacity of Randy Poynter Lake in northern Georgia and to assess recent sedimentation. The U.S. Geological Survey (USGS) Lower Mississippi-Gulf Water Science Center (LMGWSC) collected bathymetric data from November 29, 2022 to December 4, 2022 in support of RCDWR’s mission. Bathymetric data were collected using a high-resolution multibeam echosounder mapping system (MBMS), which consists of a multibeam echosounder (MBES) and an inertial navigation system (INS) mounted on a marine survey vessel, similar to methodologies described by Huizinga (2017). The final dataset of lakebed elevations (RandyPoynter2022_points.shp) is provided in ESRI Shapefile format (ESRI, 1998) as three-dimensional (3D) point feature geometries projected in the Universal Transverse Mercator (UTM) coordinate system, zone 17 north (N), horizontally referenced to the North American Datum of 1983, 2011 realization (NAD83 (2011)) and vertically referenced to the North American Vertical Datum of 1988 (NAVD88) (NGS, 2018b). The shapefile’s attribute table provides an uncertainty estimate for each 3D point in units of meters. Elevations and uncertainties were estimated at a grid spacing of 0.5 meters using the Combined Uncertainty and Bathymetric Estimator (CUBE) algorithm (Calder and Wells, 2007) implemented in HYPACK 2022, a hydrographic collection and post-processing software. The 2022 point dataset of gridded lakebed elevations was combined with additional elevation data outside of the area collected by the MBMS up to the flood pool elevation of about 225.5 meters, or 739.9 feet (Rockdale County, 2013). The supplemental data included topographic bare-earth aerial light detection and ranging (lidar) points collected between 2018 and 2019, publicly available from the USGS 3D Elevation Program (3DEP), as well as topographic bare-earth lidar and single-beam data collected by Lee (2012). The multisource elevation dataset was used to generate a continuous surface up to the flood pool elevation from which topo-bathymetric contours were created at both 2-foot and 0.5-meter intervals. The topographic contours are provided in ESRI Shapefile format with an attribute table and metadata in the zipped archive named RandyPoynter2022_contours.zip.

Tags: bathymetry, bathymetry-and-elevation, conyers, elevation, georgia, inlandwaters, lakebed-characteristics, multibeam, multibeam-sonar, parkers-lake, randy-poynter-reservoir, u-s-geological-survey, usgs, usgs-64d54d8cd34ef477cf3d1fe2, xyz
Organization: Department of the Interior
Nitrogen loads, yields, and associated field data collected during baseflow conditions and site attributes for small basins draining to Long Island Sound

During the spring and summer of 2022, the U.S. Geological Survey collected water-quality samples for nutrient analysis at 45 stations across the state of Connecticut and adjacent areas of New York and Rhode Island to better understand the groundwater discharge component of nitrogen loading to the Long Island Sound.
The targeted stations were located in small drainage basins (less than 50 square kilometers) in the southern portion of the Long Island Sound watershed. Sites were selected randomly from groups based on expected drivers or controls on baseflow nitrogen loads. Factors used in the grouping included four metrics calculated for the upstream watershed: percent impervious cover, septic system density, percent agricultural or turf grass land cover, and percent coarse-grained stratified sediments.  
The water-quality samples and instantaneous discharge measurements were collected under baseflow conditions during two separate synoptic sampling events, one in the nongrowing season (April 2022) and one in the growing season (June and July 2022). Instantaneous discharge measurements were collected in addition to water-quality samples to enable the calculations of nitrogen loads and yields. The water-quality samples were analyzed for physical properties and concentrations of chloride, nutrient species, and dissolved organic carbon; some analyses were performed past analytical method holding times.
This data release includes site characteristics and geospatial data for potential and final (selected) sites, as well as field data, analytical results, and calculated nitrogen loads and yields for the final sites. Column names, units and descriptions are provided in data_dictionary.txt and a lookup table for method codes is provided in MethodLookupTable.txt. Note that many station identifiers (site_no) have a leading "0" that should be retained.

Tags: connecticut, connecticut-coastal, groundwater-and-surface-water-interaction, inlandwaters, long-island-sound, new-york, nitrogen, nutrient-content-water, rhode-island, stream-discharge, usgs-64d4cf91d34ef477cf3d1680
Organization: Department of the Interior
Diet of burros at Lake Pleasant, Arizona and Sinbad, Utah Herd Management Areas in June and July 2019

We investigated the summer diets of feral burros (Equus asinus) in two ecosystems in which they are found in the United States: a subtropical desert in Arizona (Lake Pleasant Herd Management Area; HMA) and a temperate juniper shrubland in Utah (Sinbad HMA). In June and July of 2019, we gathered 50 burro fecal samples randomly from each location and used plant DNA metabarcoding to determine the burros’ diets.
This dataset includes two.csv files:
Burro_diet_AZ_UT_JuneJuly_2019_genera.csv - data showing the diet of burros at Lake Pleasant, AZ and Sinbad, UT HMAs by percent of genera detected.
Burro_diet_AZ_UT_JuneJuly_2019_species.csv - data showing the diet of burros at Lake Pleasant, AZ and Sinbad, UT HMAs by percent of species detected.

Tags: arizona, biota, diet, dna-sequencing, donkey, equus, feral-burro, lake-pleasant, metabarcoding, usgs-64d418e1d34ef477cf3ced15, utah
Organization: Department of the Interior
Great Lakes Sediment Surveillance Program: Mercury Concentrations and Mercury Stable Isotopes in Sediments of the Laurentian Great Lakes

As part of the larger Great Lakes Sediment Surveillance Program (GLSSP), the U.S. Geological Survey Mercury Research Laboratory (MRL) partnered with the U.S. Environmental Protection Agency and the University of Minnesota-Duluth to assess contaminant concentrations within surface sediments and sediment cores from the Laurentian Great Lakes. Sediments were assessed for mercury concentrations and mercury stable isotopes to examine spatial trends and sources of mercury within the lakes. In 2021, 30 sites were surveyed in Lake Superior. Mercury concentrations within Lake Superior surface sediment ranged from 1.1 to 161.2 ng/g. Mercury isotopes displayed a range in δ202Hg from -0.12 to -1.74 ‰ with measurable Δ199Hg and Δ200Hg across all Lake Superior sites.  In 2022, 32 surface sediment sites were surveyed in Lake Huron. Mercury concentrations within Lake Huron sediment ranged from 0.7-to- 113.7 ng/g across all samples. Mercury isotopes displayed a range in δ202Hg from -0.12 to -1.74 ‰. In 2023, surface sediments were collected at 30 sites across Lake Ontario. Total mercury concentrations in surface sediments ranged from 19 ng/g to 2001.1 ng/g. 
Three deep sediment cores were collected in each lake. The sediment cores ranged in length from 15 cm to 50 cm. All cores showed a similar pattern for HgT except for cores at H038 and H054. From the top of the core, HgT concentrations increase to a maximum concentration (127.4 - 3035.3 ng/g) that occurs between 5 and 15 cm below the surface and then decreases to concentrations that range from 18.7 ng/g to 40 ng/g. The cores from H038 and H054 show decreasing or no change in HgT concentration in the upper portion of the core and then follow similar trends to the third core (H012) collected in Lake Huron.

Tags: biogeochemical-cycling, great-lakes, isotopic-analysis, lake-huron, lake-ontario, lake-superior, limnology, mercury, sediment, usgs-64d2902fd34ef477cf3cc7fd
Organization: Department of the Interior
Bathymetric and Topographic Surveys at Select Alaska Highway Bridges, 2023

In July 2023, the U.S. Geological Survey Alaska Science Center (USGS ASC) and the USGS Idaho Water Science Center (IDWSC), in cooperation with Alaska Department of Transportation and Public Facilities (AKDOT &amp; PF), completed bathymetric and topographic surveys at four highway bridge structures using multibeam bathymetry and boat-mounted Light Detection and Ranging (LiDAR). The National Bridge Inventory structure number 524 on the Tanana River near Big Delta, AK is located on Alaska State Route 2 (commonly referred to as the Richardson Highway). Structure number 201 on the Tanana River near Nenana, AK is located on Alaska State Route 3 (commonly referred to as the Parks Highway). Structure number 254 on the Susitna River near Talkeetna, AK is also located on Alaska State Route 3. Structure number 539 on the Knik River on the Old Glenn Highway near Butte, AK. Bathymetric and topographic data generally include complete coverage of the streambed and banks upstream and downstream of the bridge as well as the bridge structures. This metadata describes the July 24-27 bathymetric and LiDAR surveys at structure numbers 524, 201, 254, and 539.

Tags: ak, alaska, bathymetry, bathymetry-data, butte, copper-river, cordova, elevation, erosion, geomorpholgy, hydrographic-dataset, hydrology, hypack, hysweep, inlandwaters, knik-river, multibeam, multibeam-sonar, scour, topography, usa, usgs, usgs-64d26597d34ef477cf3cc2dc
Organization: Department of the Interior
Predictions of PFAS Occurrence in Groundwater at the Depth of Drinking Water Supplies in the Conterminous United States: Data and Model Archive

An extreme gradient boosting ensemble tree model predicting per- and polyfluoroalkyl substances (PFAS) occurrence in groundwater at the depths typical of the bottom of public and domestic drinking water supplies across the conterminous United States was developed. PFAS data used to train the model were collected between 2019 and 2022 by the U.S. Geological Survey National Water Quality Network, Groundwater and the California Groundwater Ambient Monitoring and Assessment Program – Priority Basin Project. This dataset contains concentrations of PFAS, volatile organic compounds (VOCs), pharmaceuticals, and tritium in groundwater, along with associated quality assurance and quality control data. Concentrations of VOCs and pharmaceuticals were measured at the U.S. Geological Survey (USGS) National Water Quality Laboratory in Lakewood, Colorado. Concentrations of PFAS were measured at SGS North America Inc. - Environment Health &amp; Safety in Orlando, Florida.  Concentrations of tritium were measured at the USGS Tritium Laboratory in Menlo Park, California. PFAS concentrations were converted to a binary (either detected or not detected) for modeling. Model predictor variables used for training the final model were urban land use, well depth, average soil clay content, nitrogen loading from septic systems, recharge, population density, depth to water, and distance to the nearest potential PFAS source (fire training areas, airports, waste facility, etc.). Model predictions were at 1x1 kilometer resolution. All model inputs (model training dataset and rasters for prediction), the model object, model outputs, and source code to generate final model predictions are provided. Model outputs are the rasters for the predicted occurrence of PFAS at the depths typical for (1) public drinking water supply, and (2) domestic (private well) drinking water supply.

Tags: domestic-well-water-use, groundwater, modeling, pfas, public-supply-water-use, usgs-64d167cbd34ef477cf3c0266, water-quality
Organization: Department of the Interior
Satellite-derived spectral indices to characterize wildfire impacts on forested sites in Glacier National Park, Montana

The dataset contains spectral indices values calculated from Landsat imagery, normalized difference vegetation index (NDVI) and delta normalized burn ratio (NBR, deltaNBR). The spectral indices were computed for 1472 forested sites in the Glacier National Park, Montana, over the 1984-2021 period, in areas that were burned or not burned during the Robert Fire of 2003.

Tags: biota, deltanbr, environment, glacier-national-park, landsat, montana, nbr, ndvi, spectral-indices, united-states, usgs-64d148a6d34ef477cf3bfdea, wildfire
Organization: Department of the Interior
A comparison of pan trap and hand net bee collection methods at Badlands National Park, South Dakota, 2012

This data record includes bee species captured by pan trap or hand net in 1-hectare, mixed-grass prairie plots at Badlands National Park, South Dakota, in 2012.

Tags: badlands-national-park, bees, biota, flower-visitors, grassland-ecosystems, great-plains, hymenoptera, mixed-grass-prairie, pollination, south-dakota, species-richness, usgs-64d1433bd34ef477cf3bfdcb
Organization: Department of the Interior
Biological and chemical data from laboratory toxicity exposures of rainbow trout to four wildland fire retardants

We determined the acute toxicity of four wildland fire retardants (Phos-Chek 259-Fx, Phos-Chek MVP-Fx, and Phos-Chek LC-95A-Fx, and Phos-Chek LC-95A-R) to two life stages (swim-up fry and young juveniles) of rainbow trout in standardized hard and soft water.  The measure of acute toxicity was expressed as both the 96-hour median lethal concentration (96-h LC50, based on mortality) and 96-h median effective concentration (EC50, based on mortality, plus loss of equilibrium and immobilization), which are statistically derived concentrations expected to kill or kill and severely impair, respectively, 50 percent of the test fish in 96 hours. This data set includes the concentration-response data at 24, 48, 72, and 96 hours of exposure for each chemical and measured concentrations of total ammonia in each treatment at 0 and 96 hours.  Also included are supportive water quality data measured in each treatment at 0, 48, and 96 hours of exposure and total length and wet weight of the control fish at the end of each test.

Tags: acute-toxicity, ammonia, biota, fire-retardants, fires, hazard-preparedness, usgs-64d136cdd34ef477cf3bfd77, water-quality, wildfires
Organization: Department of the Interior
Data describing the use of retention ponds on commercial poultry facilities on Delmarva by wild waterfowl

These data support a paired USGS publication and document the use of retention ponds on commercial poultry farms by wild waterfowl.

Tags: avian-influenza, biota, domestic-poultry, usgs-64d12592d34ef477cf3bfd29, wild-waterfowl
Organization: Department of the Interior
Digital database for the geologic map of the Vidal, California, and Parker SW, California-Arizona quadrangles

This geologic database is a digitized version of the original 1:24,000-scale analog geologic map titled "Geologic map of the Vidal, California, and Parker SW, California-Arizona quadrangles", published by the U.S. Geological Survey (USGS) in 1980. The map area straddles the Arizona-California border, and is located approximately 9.0 km (5.6 mi) west-southwest of Parker, CA, immediately south of the unincorporated communities of Vidal and Vidal Junction, CA. The map area includes the northern Riverside Mountains, which contain a prominent suite of Permian, Mesozoic, and potentially Precambrian metamorphic and metasedimentary rocks. These rocks predominantly consist of gneisses, schists, limestones, and dolomites, separated by three mapped structural discontinuities and the prominent Whipple Mountains Detachment Fault. The map area additionally contains small outcrops of Miocene intermediate-to-felsic volcanic rocks consisting of basaltic andesite flows, andesitic porphyry, rhyolitic intrusives, and the Peach Springs Tuff.  The Riverside Mountains are surrounded by numerous sedimentary units, largely consisting of fluvial deposits, that record the arrival and subsequent fluctuations of the Colorado River in the region from the Pliocene through the Holocene. These sedimentary units additionally record Quaternary alluvial fan processes on the flanks of the Riverside Mountains and in the lower Vidal Valley.

Tags: alluvium, andesite, arizona, bedrock-geologic-units, breccia, california, colorado-river-indian-reservation, digitization, dolomite, faulting-geologic, gems-geologic-map-schema, geologic-contacts, geologic-history, geologic-maps, geoscientificinformation, gmeg-geology-minerals-energy-and-geophysics-science-center, gneiss, granite, gravel, igneous-rocks, intermediate-volcanic-rock, limestone, locos-geologic-mapping-of-the-lower-colorado-river-system, mafic-volcanic-rock, metamorphic-rocks, ncgmp-national-cooperative-geologic-mapping-program, ngmdb-national-geologic-map-database, parker, parker-sw, plutonic-rocks, rhyolite, riverside-mountains, sand, sedimentary-rocks, tufa, tuff, unconsolidated-deposits, usgi-u-s-geoframework-initiative, usgs-64d1165bd34ef477cf3bf8d4, vidal, volcanic-rocks
Organization: Department of the Interior