AndreaBozzo/ceres-open-data-index huggingface dataset:
Carex specuicola genomic data for the southern Colorado Plateau Desert

These data were compiled to investigate the demographic and phylogeographic of Carex specuicola. Objectives of our study were to understand the demographic and dispersal history of Carex specuicola across hanging gardens, the hybridization history between Carex specuicola and Carex utahensis, and the population structure of Carex specuicola across its distribution. The data release consists of three tab delimited text files that may be used to infer population structure and diversity (CASP.stru), relationships among sampling localities Carex.phylip), or genetic diversity statistics and demographic history (Carex.snps.vcf). These data represent genetic variation on an individual (.stru and .vcf) or sampling locality (.phylip) level. The .vcf file contains all of the information contained in the other files, but the file structures vary based on the programs used for analysis. These files may be opened and edited in a text editor program, such as Notepad ++ (PC) or BBEdit (Mac). The .vcf file can be loaded into the Stacks population program (Catchen et al. 2013) to calculate genetic diversity statistics. The .phylip file can be uploaded to phyML to generate a tree-based visualization of relationships (http://www.atgc-montpellier.fr/phyml/). The .stru file can be used in the STRUCTURE program (Falush et al. 2007) to estimate population structure. These data were collected in 2020 using leaf samples collected from hanging gardens in the Four Corners region of Arizona and Utah. These data were collected by U.S. Geological Survey and Deaver Herbarium researchers who visited hanging garden sites and sampled leaf tissues from individual plants.

Tags: alleles, arizona, biodiversity, biogeography, biota, carex-specuicola, colorado, colorado-plateau, colorado-plateau-desert, data-release, demographic-history, demographics, evolution, field-sampling, genetic-data, genetic-diversity, genetic-loci, genetic-variation, genetics, hanging-gardens, native-species, new-mexico, phylogeny, phylogeography, population-diversity, population-dynamics, population-structure, sampling-locality, southwestern-united-states, usgs-62f2e3f8d34eacf5397319f8, utah
Organization: Department of the Interior
Bias-corrected daily precipitation at 1-kilometer resolution for Puerto Rico from dynamical downscaling by the Weather Research and Forecasting (WRF) model of the Centre National de Recherches Meteorologiques-CERFACS (CNRM) model for the future projection period 2040-60

Bias-corrected daily precipitation at 1-kilometer (km) scale is provided for Puerto Rico. The Weather Research and Forecasting (WRF) model was used by Bowden and others (2018) to dynamically downscale the Centre National de Recherches Meteorologiques-CERFACS (CNRM) model for the future projection period 2040–60. Total hourly precipitation data (convective plus non-convective) for the innnermost domain in Bowden and others (2018; their domain 3) was aggregated to a daily timestep and then bias-corrected using Multiplicative Quantile Delta Mapping (MQDM; Cannon and others, 2015) with Daymet v4 as the observational gridded precipitation dataset (Thornton and others, 2020). The bias-corrected daily precipitation data is provided on the 1-km grid of the Puerto Rico water and energy balance model (GOES-PRWEB; Harmsen and others, 2021). 
File can be read in R using the RNetCDF package as follows: 
nc=open.nc("BC_rainfall_data_CNRM_2040-2060_GOESPRWEB_grid.nc")  
lat=var.get.nc(nc,"lat")  
lon=var.get.nc(nc,"lon")  
times=var.get.nc(nc,"time")  
prcp=var.get.nc(nc,"prcp")  
To convert the times to POSIXlt in the local time zone for Puerto Rico (America/St_Thomas = AST), use:
timechar=as.POSIXlt(times*3600,tz="America/St_Thomas",origin="1970-01-01")

Tags: climatologymeteorologyatmosphere, precipitation, precipitation-atmospheric, puerto-rico, rainfall, usgs-62ec0527d34eacf539724da6
Organization: Department of the Interior
Nearshore total water level (TWL) proxies (2018-2100) for Northern California

Nearshore proxies for total water level (TWL) developed for Coastal Storm Model (CoSMoS) work in Northern California 3.2 are presented. Deterministic dynamical modeling of future climate conditions and associated hazards, such as flooding, can be computationally-expensive if century-long time-series of waves, sea level variations, and overland flow patterns are simulated. To focus such modeling on storm events of interest, local impacts over long time periods and large geographical areas are estimated. Nearshore proxies for total water level (TWL) are generated via a computationally simple approach, assuming a linear superposition of the important processes contributing to overall total water level. A time series of TWL proxies is used as the basis for 1) identifying coastal segments that respond similarly to region-wide coastal storms, 2) selecting storm events for detailed hydrodynamic modeling within CoSMoS, and 3) to drive long-term shoreline change and bluff retreat models.

Tags: beaches, climate-change, climatologymeteorologyatmosphere, cmhrp, coastal-and-marine-hazards-and-resources-program, earth-sciences, effects-of-climate-change, erosion, extreme-weather, floods, hazards-planning, mathematical-modeling, northern-california, northern-california-coast, ocean-waves, ocean-winds, oceans, pacific-coastal-and-marine-science-center, pcmsc, state-of-california, storm-surge, storms, u-s-geological-survey, usgs, usgs-62ec48e0d34eacf539724fd0, water-depth, waves, wind
Organization: Department of the Interior
Airborne magnetic and radiometric survey, Idaho Cobalt Belt, Central Idaho, 2021; Magnetic and Radiometric Data

This publication provides digital flight line data for a high resolution magnetic and radiometric survey over an area of central Idaho, USA. The survey includes airborne geophysical data collected as part of the U.S. Geological Survey (USGS) Earth Mapping Resource Initiative (Earth MRI) effort (Day, 2019). Earth MRI is a cooperative effort between the USGS, the Association of American State Geologists, and other federal, state, and private sector organizations to improve our knowledge of the geologic framework of the United States. Data for this survey were collected by Sander Geophysics Ltd.  under contract with the USGS using a rotary wing aircraft with a magnetometer mounted in the forward stinger and a fully calibrated gamma ray spectrometer. The survey operated out of the Salmon Idaho airport from September of 2021 to October of 2021. The survey covers an approximately 65 kilometer by 90 kilometer area centered on the igneous complex underlying the Salmon Challis National Forest. Data were collected along east west flight lines spaced 200 meters apart with north south tie lines flown every 2,000 meters. A mean terrain clearance of 200 meters was maintained except where safety dictated a higher elevation. A total of 16,950 line kilometers of data were collected. Files that are available in this publication include flight line data for the magnetic survey, flight line data for the radiometric survey and a report describing the survey parameters, field operations, quality control and data reduction procedures.

Tags: aasg, aeromagnetic-surveying, aeroradiometric-surveying, airborne-geophysical-survey, association-of-american-state-geologists, custer-county, earth-mapping-resources-initiative, earthmri, economy, geology-minerals-energy-and-geophysics-science-center, geophysics, geoscientificinformation, geospatial-datasets, gmegsc, idaho, idaho-cobalt-belt, lemhi-county, magnetic-field-earth, mineral-resources-program, mrp, potassium, salmon-challis-national-forest, sander-geophysics-ltd, thorium, u-s-geological-survey, united-states-of-america, uranium, usa, usgs, usgs-62ec57fbd34eacf539724fed
Organization: Department of the Interior
Database for the geologic map of the Great Smoky Mountains National Park region, Tennessee and North Carolina

The geologic map database of the Great Smoky Mountains National Park region of Tennessee and North Carolina is a result from studies from 1993 to 2003 as part of a cooperative investigation by the U.S. Geological Survey with the National Park Service (NPS). This work resulted in a 1:100,000-scale geologic map derived from mapping that was conducted at scales of 1:24,000 and 1:62,500. The geologic data are intended to support cooperative investigations with the NPS, the development of a new soil map by the Natural Resources Conservation Service, and the All Taxa Biodiversity Inventory. In response to a request by the NPS, we mapped previously unstudied areas, revised the geology where problems existed, and developed a map database for use in interdisciplinary research, land management, and interpretive programs for park visitors.

Tags: abandoned-mines-and-quarries, alluvium, amphibolite, bedrock-geologic-units, blount-county, blue-ridge-province, calc-silicate-rock, cambrian, carbonate-rock, chilhowee-group, clastic-rock, clay-or-mud, conasauga-group, conglomerate, cooke-county, devonian, dolostone, earth-material, earth-sciences, economy, environment, folding-geologic, foliation-geologic, fracture-geologic, geologic-contacts, geologic-maps, geologic-processes, geologic-structure, geologic-time-periods, geologic-time-scales, geology, geoscientificinformation, geospatial-datasets, gneiss, graham-county, granofels, granulite, gravel, great-smoky-group, haywood-county, holocene, igneous-rocks, information-product-types, jackson-county, knox-county, knox-group, limestone, lithology, maps-and-atlases, mesoproterozoic, metamorphic-rock, metamorphic-rocks, metamorphism-geological, metasedimentary-rock, metavolcanic-rock, mineral-deposits, mineral-resources, mining-and-quarrying, mississippian, mixed-carbonate-clastic-rock, monroe-county, mudstone, mylonite, neoproterozoic, north-carolina, ocoee-supergroup, ordovician, phyllite, phyllonite, place, pleistocene, proterozoic, residuum, rocks-and-deposits, sand, sandstone, schist, sedimentary-breccia, sedimentary-rock, sedimentary-rocks, sedimentation, serpentinite, sevier-county, shale, silt, siltstone, snowbird-group, stratum, structural-geology, structure, surficial-geologic-units, swain-county, tectonite, tennessee, tennessee-valley, unconsolidated-deposits, unconsolidated-material, usgs-62ed1c05d34eacf53972548e, utilitiescommunication, valley-and-ridge-province, volcanic-rock, walder-creek-group
Organization: Department of the Interior
Supporting Spatial Data for Sediment Studies in the Bogachiel and Calawah River Watersheds, Washington

This Data Release provides spatial data to support analysis of land cover change and channel width change in the Bogachiel and Calawah River basins, Washington. This supports a larger analysis that quantifies suspended-sediment yields for the two basins for water years 1977-1978 and more recently, for water years 2019-2021. Collectively the study evaluates influences of hydrology, geology, fire, and land cover change on suspended-sediment yields.
Data Release Directory Structure:
\Bogachiel_Calawah_Imagery.zip
\Bogachiel_Calawah_Imagery.xml: metadata file to describe all imagery files in this folder
\1939_mosaic.tif
\1952_mosaic.tif
\1955_mosaic.tif
\1977_mosaic.tif
\1990_mosaic.tif
\1939_1_manual_georef.tif
\1939_2_manual_georef.tif
\1939_3_manual_georef.tif
\1939_4_manual_georef.tif
\1939_5_manual_georef.tif
\1939_6_manual_georef.tif
\1939_7_manual_georef.tif
\1939_8_manual_georef.tif
\ActiveChannel_Centerlines_ClearedAreas.zip: data and metadata for digitized active channel, centerlines, and cleared areas for 1939, 1952, 1955, 1977, 1990, 2006, and 2017 for the Bogachiel and Calawah Rivers.
\Active_channel.shp
\Active_channel.xml
\Centerlines.shp
\Centerlines.xml
\ClearedAreas.shp
\ClearedAreas.xml
\ForksFire.zip: data and metadata for 1951 Great Forks Fire
\1951_GreatForks_Fire.shp
\1951_GreatForks_Fire.xml
\DigitizedSubreaches.zip: data and metadata for digitized active channels and centerlines for select subreaches in the Bogachiel and Calawah Rivers by four individual digitizers for 1939, 1952, 1955, 1977, 1990, 2006, and 2017.
\AC_Digitized_Subreaches.shp
\AC_Digitized_Subreaches.xml
\CL_Digitized_Subreaches.shp
\CL_Digitized_Subreaches.xml
Anderson, SW, Jaeger, KL, Rasmussen, N, Seguin, CM, Wilkerson, OA, and Curran, CA, 2022, Suspended-Sediment Data for the Bogachiel and Calawah Rivers, WA for Water Years 2019-2021: U.S. Geological Survey Data Release, https://doi.org/10.5066/P9YT9CN2.

Tags: active-channels, aerial-photographs, bogachiel-river, calawah-river, centerlines, forks, geo-referencing, olympic-peninsula, planform-change, river, usgs-62ed3dc5d34eacf539725603, washington-wa
Organization: Department of the Interior
Data to create and evaluate distribution models for invasive species for different geographic extents

We developed habitat suitability models for invasive plant species selected by Department of Interior land management agencies. We applied the modeling workflow developed in Young et al. 2020 to species not included in the original case studies. Our methodology balanced trade-offs between developing highly customized models for a few species versus fitting non-specific and generic models for numerous species. We developed a national library of environmental variables known to physiologically limit plant distributions (Engelstad et al. 2022 Table S1: https://doi.org/10.1371/journal.pone.0263056) and relied on human input based on natural history knowledge to further narrow the variable set for each species before developing habitat suitability models. We developed models using five algorithms with VisTrails: Software for Assisted Habitat Modeling [SAHM 2.1.2]. We accounted for uncertainty related to sampling bias by using two alternative sources of background samples, and constructed model ensembles using the 10 models for each species (five algorithms by two background methods) for three different thresholds (conservative to targeted). The mergedDataset_regionalization.csv file contains predictor values associated with pixels underlying each presence and background point. The testStripPoints_regionalization.csv file contains the locations of the modeled species occurring in the different geographic test strips.

Tags: contiguous-united-states, eastern-sage, great-basin, great-plains, habitat-suitability, invasive, sahm, species-distribution-modeling, united-states, usgs-62ed448ad34eacf53972563c, vistrails
Organization: Department of the Interior
Eight Multichannel Seismic Reflection lines acquired as part of a Seismic Evaluation of the Oil and Gas resource assessment of the Naval Oil Shale Reserve 2 (NOSR 2), Utah (ver. 1.1, December 2022)

This data release contains seismic data for eight (8) two-dimensional (2D) multichannel seismic reflection (MCS) lines recorded in 1981 in Utah as part of a Seismic Evaluation of the Naval Oil Shale Reserve 2 (NOSR 2) commissioned by the U.S. Department of Energy (DOE). The lines are designated TRW-1 through TRW-8. This release includes original digital field data, including support metadata records (Navigation, Observer Notes, Survey Notes, maps, etc.).   Shapefiles of the geophone stations/shotpoints and seismic lines are part of this release to help document the location of the surveys.  Also included are the aforementioned MCS lines in SEG-Y format, reprocessed by the USGS in 1993-1994 to the point of unmigrated and migrated time using (at that time) state-of-the-art seismic processing software and included as part of a 1994 USGS evaluation of the Oil and Gas Resources of NOSR-2, commissioned by DOE.  Links to publications resulting from the two resource evaluation studies mentioned above are given below.  The SEG-Y format seismic files and associated support data contain all the information necessary to reprocess the lines from the field data or to load the processed data onto a seismic interpretation workstation.  Version 1.0, September 2022
Version 1.1, November 2022 - Included missing FieldTapes.zip, which were accidently not included in 1.0 version. New version of 'Original-Shotpoint-Map.tiff' included, which has a minor label change.

Tags: 2-dimensional-seismic-data, geophones, geophysics, geoscientificinformation, maps-and-atlases, multichannel-seismic-reflection, naval-oil-shale-reserve, onshore-geophysics, post-stack-time-migration, seismic-reflection-methods, usgs-62ed582dd34eacf539725672, utah
Organization: Department of the Interior
Digital database of the previously published Geologic maps and cross sections showing configurations of bedrock surfaces, Broken Bow 1° x 2° quadrangle, east-central Nebraska

This digital data release contains spatial datasets of bedrock geology, volcanic ash bed locations, test hole locations, bedrock outcrops, and structure contours of the top of bedrock and the base of the Ogallala Group from a previously published map (Souders, 2000). The GeologicMap feature dataset contains separate feature classes for the Ogallala Group map unit (ContactsAndFaults and MapUnitPolys) and the underlying pre-Ogallala bedrock map units (ContactsAndFaults_Bedrock and MapUnitPolys_Bedrock). The VolcanicAshBedPoints feature class contains the locations of volcanic ash beds within the Ogallala Group. The contours depicting the elevation of the top of bedrock (top of Ogallala Group where present and top of pre-Ogallala bedrock where Ogallala is absent) are contained in the IsoValueLines_TopBedrock feature class. The contours depicting the elevation of the base of the Ogallala Group are contained in the IsoValueLines_BaseOgallala feature class. Contoured values are given in both feet and meters. Feature classes containing the location of test holes (TestHolePoints) and bedrock outcrops (OverlayPolys) that were used in generating the structure contour surfaces are included. Nonspatial tables define the data sources used, define terms used in the dataset, and describe the geologic units. A tabular data dictionary describes the entity and attribute information for all attributes of the geospatial data and the accompanying nonspatial tables. Surficial geologic units that are only represented as cross-sections on the original map publication, and the cross-sections themselves, are not included in this digital data release.

Tags: arikaree-group, bedrock-geologic-units, cretaceous, elevation, eocene, gems, geologic-map-schema, geoscientificinformation, miocene, national-cooperative-geologic-mapping-program, national-geologic-synthesis-project, ncgmp, ngs, niobrara-formation, ogallala-group, oligocene, pierre-shale, structure-contours, us-geoframework-initiative, usgi, usgs-62ed5c1bd34eacf53972569d, white-river-group
Organization: Department of the Interior
Airborne magnetic and radiometric survey, Idaho Cobalt Belt, Central Idaho, 2021; Magnetic Data

This publication provides digital flight line data for a high resolution magnetic and radiometric survey over an area of central Idaho, USA. The survey includes airborne geophysical data collected as part of the U.S. Geological Survey (USGS) Earth Mapping Resource Initiative (Earth MRI) effort (Day, 2019). Earth MRI is a cooperative effort between the USGS, the Association of American State Geologists, and other federal, state, and private sector organizations to improve our knowledge of the geologic framework of the United States. Data for this survey were collected by Sander Geophysics Ltd.  under contract with the USGS using a rotary wing aircraft with a magnetometer mounted in the forward stinger and a fully calibrated gamma ray spectrometer. The survey operated out of the Salmon Idaho airport from September of 2021 to October of 2021. The survey covers an approximately 65 kilometer by 90 kilometer area centered on the igneous complex underlying the Salmon Challis National Forest. Data were collected along east west flight lines spaced 200 meters apart with north south tie lines flown every 2,000 meters. A mean terrain clearance of 200 meters was maintained except where safety dictated a higher elevation. A total of 16,950 line kilometers of data were collected. Files that are available in this publication include flight line data for the magnetic survey, flight line data for the radiometric survey and a report describing the survey parameters, field operations, quality control and data reduction procedures.

Tags: aasg, aeromagnetic-surveying, aeroradiometric-surveying, airborne-geophysical-survey, association-of-american-state-geologists, custer-county, earth-mapping-resources-initiative, earthmri, economy, geology-minerals-energy-and-geophysics-science-center, geophysics, geospatial-datasets, gmegsc, idaho, idaho-cobalt-belt, lemhi-county, magnetic-field-earth, mineral-resources-program, mrp, potassium, salmon-challis-national-forest, sander-geophysics-ltd, thorium, u-s-geological-survey, united-states-of-america, uranium, usa, usgs, usgs-62ed9ca9d34eacf539725790
Organization: Department of the Interior
Airborne magnetic and radiometric survey, Idaho Cobalt Belt, Central Idaho, 2021; Radiometric Data

This publication provides digital flight line data for a high resolution magnetic and radiometric survey over an area of central Idaho, USA. The survey includes airborne geophysical data collected as part of the U.S. Geological Survey (USGS) Earth Mapping Resource Initiative (Earth MRI) effort (Day, 2019). Earth MRI is a cooperative effort between the USGS, the Association of American State Geologists, and other federal, state, and private sector organizations to improve our knowledge of the geologic framework of the United States. Data for this survey were collected by Sander Geophysics Ltd.  under contract with the USGS using a rotary wing aircraft with a magnetometer mounted in the forward stinger and a fully calibrated gamma ray spectrometer. The survey operated out of the Salmon Idaho airport from September of 2021 to October of 2021. The survey covers an approximately 65 kilometer by 90 kilometer area centered on the igneous complex underlying the Salmon Challis National Forest. Data were collected along east west flight lines spaced 200 meters apart with north south tie lines flown every 2,000 meters. A mean terrain clearance of 200 meters was maintained except where safety dictated a higher elevation. A total of 16,950 line kilometers of data were collected. Files that are available in this publication include flight line data for the magnetic survey, flight line data for the radiometric survey and a report describing the survey parameters, field operations, quality control and data reduction procedures.

Tags: aasg, aeromagnetic-surveying, aeroradiometric-surveying, airborne-geophysical-survey, association-of-american-state-geologists, custer-county, earth-mapping-resources-initiative, earthmri, economy, geology-minerals-energy-and-geophysics-science-center, geophysics, geoscientificinformation, geospatial-datasets, gmegsc, idaho, idaho-cobalt-belt, lemhi-county, magnetic-field-earth, mineral-resources-program, mrp, potassium, salmon-challis-national-forest, sander-geophysics-ltd, thorium, u-s-geological-survey, united-states, united-states-of-america, uranium, usgs, usgs-62ed9e0cd34eacf539725799
Organization: Department of the Interior