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2,113 results for “Very High Resolution”
The pan-genome of Aspergillus fumigatus provides a high-resolution view of its population structure revealing high-levels of lineage-specific diversity driven by recombination
<p><em>Aspergillus fumigatus </em>is a deadly agent of human fungal disease, where virulence heterogeneity is thought to be at least partially structured by genetic variation between strains. While population genomic analyses based on reference genome alignments offer valuable insights into how gene variants are distributed across populations, these approaches fail to capture intraspecific variation in genes absent from the reference genome. Pan-genomic analyses based on <em>de novo</em> assemblies offer a promising alternative to reference-based genomics, with the potential to address the full genetic repertoire of a species. Here, we use a combination of population genomics, phylogenomics, and pan-genomics to assess population structure and recombination frequency, phylogenetically structured gene presence-absence variation, evidence for metabolic specificity, and the distribution of putative antifungal resistance genes in <em>A. fumigatus</em>. We provide evidence for three distinct populations of <em>A. fumigatus</em>, structured by both gene variation (SNPs and indels) and distinct gene presence-absence variation with unique suites of accessory genes present exclusively in each clade. Accessory genes displayed functional enrichment for nitrogen and carbohydrate metabolism, hinting that populations may be stratified by environmental niche specialization. Similarly, the distribution of antifungal resistance genes and resistance alleles were often structured by phylogeny. Despite low levels of outcrossing, <em>A. fumigatus</em> demonstrated a large pan-genome including many genes unrepresented in the Af293 reference genome. These results highlight the inadequacy of relying on a single-reference based approach for evaluating intraspecific variation, and the power of combined genomic approaches to elucidate population structure, genetic diversity, and the putative ecological drivers of clinically relevant fungi.</p> <p>Accompanying manuscript is available as preprint at <a href="https://dx.doi.org/10.1101/2021.12.12.472145">https://dx.doi.org/10.1101/2021.12.12.472145</a> </p> <p>Lotus A. Lofgren, Brandon S. Ross, Robert A. Cramer, Jason E. Stajich. Combined Pan-, Population-, and Phylo-Genomic Analysis of <em>Aspergillus fumigatus</em> Reveals Population Structure and Lineage-Specific Diversity bioRxiv 2021.12.12.472145; doi: https://doi.org/10.1101/2021.12.12.472145</p>
The potential of low-cost UAVs and open-source photogrammetry software for high-resolution monitoring of alpine glaciers: A case study from the Kanderfirn (Swiss Alps)
<p>This dataset contains high-resolution orthophotos (5 x 5 cm) and digital surface models (25 x 25 cm) of the Kandernfirn Glacier located in the Swiss Alps. Aerial images were aquired with a self-developed fixed-wing Unmanned Aerial Vehicle during ten surveys on five different days in 2017 and 2018. The open-source photogrammetry software OpenDroneMap (version 0.4.1) was used for image processing.</p> <p>The orthophotos and digital surface models were validated through dGNSS point measurements of ground control points. Please refer to the corresponding paper for information on the horizontal and vertical accuracy of the files.</p>
Data for: Impact of SO2 injection profiles on simulated volcanic forcing for the Sarychev 2009 eruptions - investigating the importance of using high vertical resolution methods when compiling SO2 data
<p>The files are data assosicated with the study High-resolution stratospheric volcanic SO2 injections in WACCM. The files are associated with four differnt simulaions described in the paper: M16, S21-1D, S21-3D and No-Volc. The files with "input" in the name are the SO2 input files used in the WACCM (Whole Atmosphere Community Climate Model) simulations in the paper. The files with "monthly_averages" in the filenames are monthly averages of model output data the variables used in the paper. </p> <p>The CALIOP_monthly_averages.nc file is monthly average of the CALIOP (Cloud-Aerosol Lidar with Orthogonal Polarization) satellite data used in the study to evaluate the WACCM simulations. </p> <p> </p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface air temperature (2-meter height) 2013-2020
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface air temperature at 2-meter height for the period 2013-2020. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>Update (2024-06-28): inconsistencies were noted in a subset of grib messages contained the first version of the repository (slightly different spatial domain size and missing messages at 00-hour timesteps) which have been corrected in the current version v2.</p> <p>Other fields currently available on Zenodo are the surface relative humidity at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="../records/12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="../records/12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface air temperature (2-meter height) 2004-2012
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface air temperature at 2-meter height for the period 2004-2012. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>Update (2024-06-28): inconsistencies were noted in a subset of grib messages contained the first version of the repository (slightly different spatial domain size and missing messages at 00-hour timesteps) which have been corrected in the current version v2.</p> <p>Other fields currently available on Zenodo are the surface relative humidity at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="../records/12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="../records/12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface air temperature (2-meter height) 1995-2003
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface air temperature at 2-meter height for the period 1995-2003. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>Update (2024-06-28): inconsistencies were noted in a subset of grib messages contained the first version of the repository (slightly different spatial domain size and missing messages at 00-hour timesteps) which have been corrected in the current version v2.</p> <p>Other fields currently available on Zenodo are the surface relative humidity at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="../records/12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="../records/12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
A high-resolution, multi-decadal, free-running, hydrodynamic simulation of the East Australia Current System using the Regional Ocean Modeling System (Version 3.0, 1994-2019)
<p>The data is from a Regional Ocean Modelling System free-running, hydrodynamic simulation of the East Australian Current System. The model has a horizontal resolution of 2.5-6 km in the cross-shore direction and 5 km in the alongshore direction, and 30 vertical s-levels. The model domain covers the southeastern Australia oceanic region from 25.1-41.5°S and 147.1-162.2°E, and the grid is orientated 20 degrees clockwise to be predominantly orientated alongshore. The time period covered is 02 Jan 1994 to 28 Feb 2019. The model outputs provided are daily averages of the following variables: Two-dimensional variables: Sea surface height (zeta), barotropic cross-grid velocity (u) and barotropic along-grid velocity (v). Three-dimensional variables: Temperature (temp), salinity (salt), density (rho), cross-grid velocity (u), along-grid velocity (v) and vertical velocity (w), temperature time rate of change (temp_rate), temperature horizontal advection term (temp_hadv), temperature vertical advection term (temp_vadv), temperature horizontal diffusion term (temp_hdiff), temperature vertical diffusion term (temp_vdiff). In this version, the heat budget terms (temp_rate, temp_hadv, temp_vadv, temp_hdiff and temp_vdiff) are set to be zeros on the land.</p> <p> </p> <p>This model is part of the <a href="../records/8294716"><strong>South East Australian Coastal Ocean Forecast System (SEA-COFS)</strong></a> suite of models.</p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface relative humidity (2-meter height) 2013-2020
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface relative humidity at 2-meter height for the period 2013-2020. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>Other fields currently available on Zenodo are the surface air temperature at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface relative humidity (2-meter height) 2004-2012
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface relative humidity at 2-meter height for the period 2004-2012. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>Other fields currently available on Zenodo are the surface air temperature at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
SPHERA High Resolution Reanalysis over Italy - Hourly surface relative humidity (2-meter height) 1995-2003
<p>SPHERA (High Resolution REAnalysis over Italy) is a convection-permitting regional reanalysis developed by ARPAE-Emilia Romagna and publicly available. The SPHERA domain covers Italy and the surrounding seas with a horizontal resolution of 2.2km. The temporal coverage corresponds to the period 1995-2020 and the dataset is available at hourly frequency. SPHERA reanalysis was developed using the Numerical Weather Prediction model COSMO (www.cosmo-model.org) nested in the global reanalysis ERA5 produced by ECMWF. Moreover, upper-air and surface observations were assimilated at the convection-permitting scale by the COSMO nudging scheme.</p> <p>This record reports the hourly surface relative humidity at 2-meter height for the period 1995-2003. The full extension of the dataset over 1995-2020 is available over three different records due to space constraints:</p> <ul> <li>1995-2003: <a href="12724026">https://zenodo.org/uploads/12724026</a></li> <li>2004-2012: <a href="12724104">https://zenodo.org/uploads/12724104</a></li> <li>2013-2020: <a href="12724140">https://zenodo.org/uploads/12724140</a></li> </ul> <p>Other fields currently available on Zenodo are the surface air temperature at 2-meter height (also over three different records due to space constraints):</p> <ul> <li>1995-2003: <a href="../records/12567563">https://zenodo.org/records/12567563</a></li> <li>2004-2012: <a href="../records/12582246">https://zenodo.org/records/12582246</a></li> <li>2013-2020: <a href="../records/12582797">https://zenodo.org/records/12582797</a></li> </ul> <p>and hourly accumulated total precipitation: <a href="https://zenodo.org/records/14617083">https://zenodo.org/records/14617083</a></p> <p>Details on the SPHERA dataset production, as well as data verification against surface observations are reported in peer-reviewed publications. See References.</p>
A 30-year high resolution simulation of the ~1980-2010 climate over the Interior Western United States
<p>A high-resolution (4 km) regional climate simulation is conducted in the Interior Western United States (IWUS) using the Weather Research and Forecasting (WRF) model. The IWUS simulation is convection permitting and uses the NoahMP land surface model. The model integration is conducted over a 30-year period from 1 October 1981 through 30 September 2011.</p> <p>This repository contains a 30-year gridded dataset of daily precipitation, and daily minimum and maximum surface (2 m) temperature from the IWUS simulation. Anyone interested in the full dataset of the IWUS simulation is encouraged to contact the lead author at yongganga.wang@gmail.com.</p>
A high-resolution 4D geospatial laser scan dataset of the beach at Mariakerke Bad, Belgium
<p>This dataset contains a high resolution (in both time and space) laser scan data set of a 1-year measurement campaign in 2017 and 2018 in the seaside resort of Mariakerke Bad in Belgium. The measurements consist of 8417 hourly laserscans of a 400 meter stretch of beach. The measurement campained was performed to study variations in shoreward sand transport at urbanized beaches. </p> <p>Laserscan data is stored in local coordinates. Time dependent corrections per laserscan epoch are provided next to a global transformation matrix to transform the local coordinates to the Belgium Lambert 2008 coordinate system.</p> <p>This data is provided as is and is licensed under the Creative Commons Attribution 4.0 International (CC-BY-4.0). See the provided PDF on more information about the CC-BY-4.0.</p> <p>Version 1 contained an error in the global transformation matrix. Version 2 corrects this.</p>
Navigating deep learning strategies for large-area land cover mapping using very-high-resolution imagery in Senegal: Validation Data
<p><span><span>R</span><span>apid</span><span> advances in deep learning</span><span> for</span> <span>land cover </span><span>classification of </span><span>trees, shrubs and </span><span>very small</span> <span>agricultur</span><span>al</span> <span>fields</span> <span>using</span> <span>very high</span><span>-</span><span>resolution satellite </span><span>data </span><span>(< 2 m</span><span>)</span><span>,</span><span> has tremendous potential</span> <span>for resolving </span><span>current</span><span> challenges </span><span>in </span><span>quantifying</span> <span>land cover </span><span>change </span><span>in</span> <span>sub-</span><span>Saharan</span> <span>African (SSA</span><span>)</span><span>,</span> <span>due to</span> <span>growing </span><span>demand for food resources</span><span>.</span> <span>We</span> <span>conducted experiments </span><span>with</span><span> different training strategies for scaling up </span><span>UNet</span> <span>convolutional neural network </span><span>models for regional land cover mapping with multispectral </span><span>WorldView</span><span> (WV</span><span>)</span><span>-2 and –3,</span><span> imagery</span><span> in</span><span> three distinct regions of Senegal </span><span>which</span> <span>has</span><span> complex </span><span>seasonal wet/dry conditions and </span><span>cropland-savanna mosaics. </span></span></p> <p>The validation exercise of this research consisted in validating more than 70,000 km<sup>2</sup> across Senegal. The infrastructure was setup in the NASA SMCE system with a total of twelve George Mason University (GMU) students participating as operators. These operators validated more than 59 WV-2 and -3 images, each consisting of 200 stratified points in 5,000 x 5,000-pixel images. This effort resulted in a total of ~35,000 aggregated observations that are available through the eo-validation API for public consumption. Each validation point from this dataset has three individual observations.</p>
Dataset: Mapping saltmarsh communities in South Portugal using high spatiotemporal resolution satellite imagery
<div> <div> <div> <p>This repository containts the datasets from the article "Mapping saltmarsh communities in South Portugal using high spatiotemporal resolution satellite imagery" (Submitted). The dataset was used in a workflow used to create saltmarsh maps for the Algarve region (South Portugal), focused on the 4 main costal systems of the region: Alvor, Arade, Ria Formosa and Guadiana.</p> <p> </p> <p>For a description of the methodology see the article [link] and Github repo [link].</p> <p> </p> <h1>Repository content</h1> <h2>1. system-masks.zip</h2> <p>Contains 4 <code>geojson</code>files with a polygon which delimits the areas included in the study. The files are named after the respective systems that they delimit. Any region outside of these polygons were not used in the analysis.</p> <p><strong>CRS</strong> - EPSG:4326</p> <h2>2. manual-clean-up-masks.gpkg</h2> <p>Polygons which were manually created to mask out (exclude) pixels which were classified as saltmarsh, but are clearly not.</p> <p>File contains a single layer with 52 polygons and one variable.</p> <p><strong>Variables:</strong></p> <ul> <li>system [<em>string</em>] - Which system the polygon delimits</li> </ul> <h2>3. saltmarsh-training-data.gpkg</h2> <p>Data used for supervised model training. Each row represents one quadrat, and each column contains either quadrat identifiers, target classes, or predictor classes.</p> <p>File contains a single layer with 2448 points and 18 variables.</p> <p><strong>Variables:</strong></p> <ul> <li>water_system [<em>string</em>] - Study system in which the quadrat was sampled</li> <li>transect [<em>string</em>] - Name of transect in which the quadrat was sampled</li> <li>quad_id [<em>integer</em>] - Unique identifier per quadrat</li> <li>cluster [<em>integer</em>] - Vegetation cluster identified via hierarchical clustering. They are nested within <code>water_system</code>, and the same number within different systems will not correspond to the same vegetation type.</li> <li>marsh_type [<em>string</em>] - Functional groupings of saltmarsh vegetation (low, middle or high), created by grouping <code>cluster</code> based on niche of the defined clusters.</li> <li>train [<em>boolean</em>] - Was quadrat used in the train (TRUE) or test (FALSE) stage of model training?</li> <li>ndvi [<em>numerical</em>] - Normalized Difference Vegetation Index, calculated from the satellite image mosaic as (nir – red) / (nir + red).</li> <li>ndwi_high [<em>numerical</em>] - Normalized Difference Water Index estimated from images at high tide, calculated as (green – nir) / (green + nir)</li> <li>ndwi_low [<em>numerical</em>] - Normalized Difference Water Index estimated from images at low tide, calculated as (green – nir) / (green + nir)</li> <li>subtime [<em>numerical</em>] - Fraction of time that a cell is estimated to be submerged in water over one year.</li> <li>coastal_blue [<em>numerical</em>] - Surface reflectance values at 443 nm.</li> <li>blue [<em>numerical</em>] - Surface reflectance values at 490 nm.</li> <li>green_i [<em>numerical</em>] - Surface reflectance values at 531 nm.</li> <li>green [<em>numerical</em>] - Surface reflectance values at 565 nm.</li> <li>yellow [<em>numerical</em>] - Surface reflectance values at 610 nm.</li> <li>red [<em>numerical</em>] - Surface reflectance values at 665 nm.</li> <li>rededge [<em>numerical</em>] - Surface reflectance values at 705 nm.</li> <li>nir [<em>numerical</em>] - Surface reflectance values at 865 nm.</li> </ul> <h2>4. saltmarsh-transect-metadata.csv</h2> <p>Comma-delimited file with information about vegetation sampling transects. Each row represents one transect.</p> <p>File contains 6 variables.</p> <p><strong>Variables:</strong></p> <ul> <li>water_system [<em>string</em>] - Study system in which the transect was sampled</li> <li>transect_set [<em>string</em>] - Which set of transects was this transect sampled in? Set A was performed in 2019, set B in 2023.</li> <li>site [<em>string</em>] - Name of the site within the study system. This was used exclusively to plan transects.</li> <li>transect [<em>string</em>] - Name of transect in which the quadrat was sampled</li> <li>date [<em>date yyyy-mm-dd</em>] - Date of transect sampling.</li> <li>notes [<em>string</em>] - Notes taken during transect sampling and which might be relevant to understand data issues.</li> </ul> <h2>5. saltmarsh-vegetation-quadrats.gpkg</h2> <p>Data used for to create vegetation clusters (<code>cluster</code>) and saltmarsh community types (<code>marsh_type</code>). The later was used as the target class in the supervised model training. Each row represents one quadrat, and each column contains either quadrat identifiers, or presence/absence of species.</p> <p>File contains a single layer with 2448 points and 32 variables.</p> <p><strong>Variables:</strong></p> <ul> <li>water_system [<em>string</em>] - Study system in which the transect was sampled</li> <li>transect [<em>string</em>] - Name of transect in which the quadrat was sampled</li> <li>transect_set [<em>string</em>] - Which set of transects was this transect sampled in? Set A was performed in 2019, set B in 2023.</li> <li>quad_id [<em>integer</em>] - Unique identifier per quadrat</li> <li>distance_from_water <em>[integer]</em> - Distance from start of quadrat, which was the point closes to the water where saltmarsh was found for that transect.</li> <li>cluster [<em>integer</em>] - Vegetation cluster identified via hierarchical clustering. They are nested within <code>water_system</code>, and the same number within different systems will not correspond to the same vegetation type.</li> <li>marsh_type [<em>string</em>] - Functional groupings of saltmarsh vegetation (low, middle or high), created by grouping <code>cluster</code> based on niche of the defined clusters.</li> <li>Arthrocaulon.macrostachyum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Tripolium.pannonicum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Atriplex.halimus [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Cistanche.phelypaea [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Atriplex.portulacoides [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Limbarda.crithmoides [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Juncus.effusus [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Limoniastrum.monopetalum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Myriolimon.ferulaceum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Limonium.vulgare [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Phragmites.australis [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Polygonum.maritimum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Puccinellia.maritima [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Salicornia.procumbens [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Salicornia.europaea [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Caroxylon.vermiculatum [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Salicornia.fruticosa [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Salicornia.perennis [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Bolboschoenus.maritimus [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Sporobolus.maritimus [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Spergularia.bocconei [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Suaeda.vera [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Triglochin.maritima [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> <li>Sporobolus.montevidensis [<em>boolean</em>] - Presence (1) or absence (0) of the species with the variable name.</li> </ul> <h2>6. predicted-map.tif</h2> <p>Geotiff file with a single layer for predicted saltmarsh community. Values are:<br> - <em>no data</em> - Not saltmarsh<br> - <em>1</em> - Low saltmarsh<br> - <em>2</em> - Middle saltmarsh<br> - <em>3</em> - High saltmarsh</p> <p><strong>CRS</strong> - EPSG:32629</p> </div> </div> </div>
Dataset for: Importance of satellite observations for high-resolution mapping of near-surface NO2 by machine learning
<p>Dataset for: Importance of satellite observations for high-resolution mapping of near-surface NO<sub>2 </sub>by machine learning</p> <p>This dataset is uploaded as a part of the article by Kim et al. (2021). The dataset is the hourly maps of near-surface nitrogen dioxide (NO<sub>2</sub>) concentrations at 100 m resolution for an Alpine domain (Switzerland and northern Italy, 6-12 °E, 42-48 °N). The dataset is provided per day (24 hours) in a netcdf (*.nc ~550MB). In this work, we have generated NO<sub>2 </sub>hourly maps for Feb. 2019 to May 2020 and, here, we upload for March 2019 only (~16 GB). If you need data for another period of time, please contact Gerrit Kuhlmann (gerrit.kuhlmann@empa.ch) or Minsu Kim (minsu.kim@empa.ch). </p>
High resolution land cover 2015 Aarhus, Denmark
<p><strong>Description</strong></p> <p>This dataset provides land-cover and land-use information at a 20cm resolution for the municipality of Aarhus, Denmark. It depicts the status for the year 2015, containing 23 thematic classes.</p> <p><strong>Spatial reference</strong><br> All data is projected in ETRS 1989 UTM Zone 32N (EPSG:25832)</p> <p><strong>Related publication</strong><br> J. M. Knopp, G. Levin and E. Banzhaf, "Aerial Data Analysis for Integration Into a Green Cadastre—An Example From Aarhus, Denmark," in <em>IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing</em>, vol. 16, pp. 6545-6555, 2023, doi: <a href="https://ieeexplore.ieee.org/document/10168752">10.1109/JSTARS.2023.3289218</a>.</p> <p><strong>Class Codec</strong></p> <table> <tbody> <tr> <td> <p><strong>Class</strong></p> </td> <td> <p><strong>Vector </strong></p> <p><strong>NumCodec</strong></p> <p><strong>(16bit)</strong></p> </td> <td> <p><strong>Raster</strong></p> <p><strong>NumCodec</strong></p> <p><strong>(8bit)</strong></p> </td> </tr> <tr> <td> <p> </p> </td> <td> <p> </p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>Building</p> </td> <td> <p>100</p> </td> <td> <p>10</p> </td> </tr> <tr> <td> <p>0 Lowest rise building</p> </td> <td> <p>110</p> </td> <td> <p>11</p> </td> </tr> <tr> <td> <p>1 Low rise building</p> </td> <td> <p>120</p> </td> <td> <p>12</p> </td> </tr> <tr> <td> <p>2 Mid rise building</p> </td> <td> <p>130</p> </td> <td> <p>13</p> </td> </tr> <tr> <td> <p>3 High rise building</p> </td> <td> <p>140</p> </td> <td> <p>14</p> </td> </tr> <tr> <td> <p>4 Highest rise building</p> </td> <td> <p>150</p> </td> <td> <p>15</p> </td> </tr> <tr> <td> <p>Mineral surface</p> </td> <td> <p>210</p> </td> <td> <p>21</p> </td> </tr> <tr> <td> <p>Bare soil</p> </td> <td> <p>220</p> </td> <td> <p>22</p> </td> </tr> <tr> <td> <p>Artificial grass</p> </td> <td> <p>230</p> </td> <td> <p>23</p> </td> </tr> <tr> <td> <p>Grass</p> </td> <td> <p>310</p> </td> <td> <p>31</p> </td> </tr> <tr> <td> <p>Shrub round</p> </td> <td> <p>410</p> </td> <td> <p>41</p> </td> </tr> <tr> <td> <p>Shrub linear</p> </td> <td> <p>420</p> </td> <td> <p>42</p> </td> </tr> <tr> <td> <p>Evergreen</p> </td> <td> <p>510</p> </td> <td> <p>51</p> </td> </tr> <tr> <td> <p>Deciduous</p> </td> <td> <p>520</p> </td> <td> <p>52</p> </td> </tr> <tr> <td> <p>Lake</p> </td> <td> <p>610</p> </td> <td> <p>61</p> </td> </tr> <tr> <td> <p>River</p> </td> <td> <p>620</p> </td> <td> <p>62</p> </td> </tr> <tr> <td> <p>Sea</p> </td> <td> <p>630</p> </td> <td> <p>63</p> </td> </tr> <tr> <td> <p>Undergrowth</p> </td> <td> <p>710</p> </td> <td> <p>71</p> </td> </tr> <tr> <td> <p>Agriculture, intensive temporary crops</p> </td> <td> <p>810</p> </td> <td> <p>81</p> </td> </tr> <tr> <td> <p>Agriculture, intensive permanent crops</p> </td> <td> <p>820</p> </td> <td> <p>82</p> </td> </tr> <tr> <td> <p>Agriculture, extensive</p> </td> <td> <p>830</p> </td> <td> <p>83</p> </td> </tr> <tr> <td> <p>unclassified</p> </td> <td> <p>999</p> </td> <td> <p>99</p> </td> </tr> <tr> <td> <p>NonAOI</p> </td> <td> <p>999</p> </td> <td> <p>99</p> </td> </tr> </tbody> </table>
Displacement measurements of the open-hardware sandbox using the AS5311 high-resolution magnetic sensor
<p>This dataset includes the experimental data from the AS5311 sensor for measuring the displacement of the Open-Hardware Geological Sandbox.</p> <p>These experiments are explained in the journal article: <a href="https://doi.org/10.1109/ACCESS.2023.3262617">Designing low-cost open-hardware electromechanical scientific equipment: A geological analogue modeling sandbox</a></p> <p>To understand this dataset, go to the Tectonic Open Hardware (TectOH) Sandbox project: <a href="https://github.com/URJCMakerGroup/TectOH">https://github.com/URJCMakerGroup/TectOH</a>. Then go to the <a href="https://github.com/URJCMakerGroup/TectOH/tree/main/optional">optional</a> folder and to the <a href="https://github.com/URJCMakerGroup/TectOH/tree/main/optional/as5311_magn_sens">magnetic sensor</a> folder.</p> <p>This data set contains two kind of files:</p> <ul> <li><strong>bin</strong>: raw binary files received from the AS5311 high resolution sensor. Although this sensor sends 12 bit data, we have truncated the most significant bits and receive only 8 bits (one byte). Therefore, each byte of these binary files is a measurement of the distance. Each distance increment corresponds to ~0.488nm (2mm/2048)</li> <li><strong>csv</strong>: csv files that can be opened with any spreadsheet app, such as Libreoffice Calc or Microsoft Excel, or even with a text editor. This file contains the processed data from the binary files. These files have been generated with the proc_magn_sensor.py Python script located in the <a href="https://github.com/URJCMakerGroup/TectOH">project repository</a>. There are some columns, which are: <ul> <li>index: measurement number</li> <li>time in milliseconds: each measurement is taken every 250 us</li> <li>median2: in micrometers, since the sensor may jitter, we have applied the median filter twice. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> <li>median1: in micrometers, median filter only applied once. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> <li>mean: in micrometers, mean filter. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> <li>mean int: in micrometers, mean filter rounded to an integer value. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> <li>orig_base: this is not in micrometers, but in the units of the sensor (~0.488nm). The only processing done is that when there is an overflow of 255 to 0, or from 0 to 255, it adds the overflow to continue the trend. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> <li>original: this is the data received from the sensor with no processing, each value is ~0.488nm</li> <li>mean2: in micrometers, mean filter applied twice. All the data has been subtracted to the lowest value, making the lowest value equal to zero.</li> </ul> </li> </ul> <p>There are two set of experiments:</p> <ul> <li><strong>Experiments with no load</strong>. These files start with <em>noload_</em><br> In these experiments the gantry is moved 1 mm alternatively to the front and then reversing direction. Moving in this alternate way a few times. There are five experiments each of them with a different speed: v= 10 mm/h; 25 mm/h; 50 mm/h; 82 mm/h and 100 mm/h. The name of the file indicates the speed: <ol> <li>noload_100mmh_1mm: FBFBF: 1mm forth, 1mm back, 1mm forth, 1mm back, 1 mm forth</li> <li>noload_25mmh_1mm: FBFFBBFB</li> <li>noload_50mmh_1mm: FBFBFB</li> <li>noload_82mmh_1mm: FBFBFB</li> <li>noload_100mmh_1mm: FBFBFB</li> </ol> </li> <li><strong>Experiments pushing a 5kg sand load</strong>. These files start with <em>load5kg_</em> <ol> <li>load5kg_25mmh_5mm: moving 5kg at 25mm/h a distance of 5mm</li> <li>load5kg_25mmh_10mm: moving 5kg at 25mm/h a distance of 10mm</li> <li>load5kg_25mmh_20mm: moving 5kg at 25mm/h a distance of 20mm</li> <li>load5kg_75mmh_20mm: moving 5kg at 75mm/h a distance of 20mm</li> <li>load5kg_75mmh_50mm: moving 5kg at 75mm/h a distance of 50mm</li> <li>load5kg_100mmh_25mm: moving 5kg at 100mm/h a distance of 20mm</li> <li>load5kg_100mmh_50mm: moving 5kg at 100mm/h a distance of 50mm</li> </ol> </li> </ul> <p> </p> <p> </p> <p> </p>
Comparison of high-resolution global canopy height maps and their applicability to biodiversity modelling - dataset
<p>This repository was created to provide datasets related with an article comparing high-resolution global canopy height maps and exploring their applicability to biodiversity modeling in temperate biomes.</p> <p>EBR stands for Entlebuch Biosphere Reserve, MRF stands for Mount Richmond Forest and TAW stands for Trinity Alps Wilderness.</p> <p>The original airborne laser scanning point clouds used for the generation of the canopy height models were sourced from the LINZ Data Service and OpenTopography, and licensed for reuse under the CC BY 4.0 licence (<a href="https://mcas-proxyweb.mcas.ms/certificate-checker?login=false&originalUrl=https%3A%2F%2Fdoi.org.mcas.ms%2F10.5069%2FG97D2SB0%3FMcasTsid%3D20893&McasCSRF=cf3ae9aed6f2016d3ceedda452d422646f4f8e5a5e6270380b370aad4964323a">https://doi.org/10.5069/G97D2SB0</a>); Federal Office of Topography swisstopo (<a href="https://mcas-proxyweb.mcas.ms/certificate-checker?login=false&originalUrl=https%3A%2F%2Fwww.swisstopo.admin.ch.mcas.ms%2Fen%2Fgeodata%2Fheight%2Fsurface3d.html%3FMcasTsid%3D20893&McasCSRF=cf3ae9aed6f2016d3ceedda452d422646f4f8e5a5e6270380b370aad4964323a">https://www.swisstopo.admin.ch/en/geodata/height/surface3d.html</a>); and U.S. Geological Survey (<a href="https://mcas-proxyweb.mcas.ms/certificate-checker?login=false&originalUrl=https%3A%2F%2Fapps.nationalmap.gov.mcas.ms%2Fdownloader%2F%3FMcasTsid%3D20893&McasCSRF=cf3ae9aed6f2016d3ceedda452d422646f4f8e5a5e6270380b370aad4964323a">https://apps.nationalmap.gov/downloader/</a>).</p> <p>The Global Forest Canopy Height Map - GFCH (Potapov et al. 2021; https://glad.umd.edu/dataset/gedi) and the high-resolution canopy height model of the Earth - HRCH (Lang et al. 2022, https://langnico.github.io/globalcanopyheight/) are provided free of charge, without restriction of use under Creative Commons Attribution 4.0 International License. Publications, models, and data products that make use of these datasets must include proper acknowledgement.</p> <p><em>P. Potapov, X. Li, A. Hernandez-Serna, A. Tyukavina, M.C. Hansen, A. Kommareddy, A. Pickens, S. Turubanova, H. Tang, C.E. Silva, J. Armston, R. Dubayah, J. B. Blair, M. Hofton (2021) Mapping and monitoring global forest canopy height through integration of GEDI and Landsat data. Remote Sensing of Environment, 112165. <a href="https://doi.org/10.1016/j.rse.2020.112165">https://doi.org/10.1016/j.rse.2020.112165</a></em></p> <p><em>Lang, N., Jetz, W., Schindler, K., & Wegner, J. D. (2022). A high-resolution canopy height model of the Earth. arXiv preprint arXiv:2204.08322.</em></p> <p>R scripts related with this datasets are available at Github (https://github.com/lukasgabor/Comparison-of-high-resolution-global-canopy-height-maps-and-their-applicability; <a href="https://doi.org/10.5281/zenodo.7332716">DOI: 10.5281/zenodo.7332716</a>)</p> <p>In the previous version (1.0) the average was calculated for the canopy height. In this version (1.1), the maximum height is calculated for the canopy height.</p>
An analyst-created, high-resolution seismic arrival time dataset for evaluating machine learning phase detectors
<p>This data set contains phase arrival times and phase labels for one hour of continuous seismic data recorded at the three-component broadband station WY.YNR on 2014 30 March from 13:00:00 to 14:00:00 UTC. This hour of data follows a M<sub>w</sub> 4.8 occurring at 12:34 UTC in the Yellowstone region and contains many small events close together in space and time. All 687 picks (404 P and 283 S) were made by a seismic analyst trained at the University of Utah Seismograph Stations. The goal was to pick as many reasonable arrivals as possible for evaluating the performance of machine-learning-based phase detectors on continuous data during high seismicity rates. Phase picks were made using the Seismic Analysis Code (SAC; Goldstein and Snoke, 2005) and Pyrocko (Heimann <em>et al</em>., 2017). In general, a 1 to 17 Hz bandpass filter was used.</p> <p>The csv file contains the pick id, phase arrival time in UTC and Unix epoch formats, and the phase labels (P or S).</p>
CLM/CTSM glacier input datasets used for study on evaluation variable-resolution CESM2 in High-Mountain Asia
<p><strong>General Info</strong></p> <p>This data archive contains the updated glacier-cover and glacier regions for the Community Land Model version 5 (CLM5)/Community Terrestrial Systems Model (CTSM). The updated glacier-cover and glacier regions are used for a study on the evaluation of variable-resolution (VR) CESM2 in High Mountain Asia (<a href="https://tc.copernicus.org/preprints/tc-2022-256/">https://tc.copernicus.org/preprints/tc-2022-256/</a>). The data archive also contains the model scripts and input files that have been used to create the glacier-cover dataset. The global glacier outlines used for the glacier-cover dataset were retrieved from the Randolph Glacier Inventory version 6 (RGI-Consortium, 2017). The vector data for the Greenland and Antarctic ice sheets were retrieved from the masks of Bedmachine version 4 (Morlighem et al., 2017, 2021) and version 2 (Morlighem et al., 2020; Morlighem, 2020), respectively. </p> <p><strong>Contact</strong></p> <p>René Wijngaard (<a href="mailto:r.r.wijngaard.uu@gmail.com">r.r.wijngaard.uu@gmail.com</a> / <a href="mailto:r.r.wijngaard@uu.nl">r.r.wijngaard@uu.nl</a>) </p> <p><strong>Dataset Contents </strong></p> <pre><code>mksrf_glacier_3x3min_simyr2000.c210708.nc</code></pre> <p>The updated glacier-cover dataset, encompassing three 3-minute datasets: 1) fractional land ice coverage, including both glaciers and ice sheets (PCT_GLACIER), 2) distributions of areal glacier coverage by elevation (PCT_GLC_GIC), and 3) distributions of areal ice-sheet coverage by elevation (PCT_GLC_ICESHEET).</p> <pre><code>mksrf_GlacierRegion_10x10min_nomask_c200813.nc</code></pre> <p>The updated glacier regions, encompassing five different glacier regions (0 - Other regions, 1 - Inside standard CISM grid but outside Greenland itself, 2 - Greenland, 3 - Antarctica, and 4 - High Mountain Asia (new)), used to set the ice melt and runoff behaviour in CLM5/CTSM (more detailed information can be found in the CLM5 Documentation, <a href="https://escomp.github.io/ctsm-docs/">https://escomp.github.io/ctsm-docs/</a>)</p> <pre><code>model_scripts.tar</code></pre> <p>Model scripts used for creating the glacier-cover dataset. A README file is included that lists instructions on how to make the glacier-cover dataset. </p> <pre><code>glacier_final.tar</code></pre> <p>Input files used to create the glacier-cover dataset. The following files are included: a global 30-arcsec merged BedMachine/GMTED2010 elevation dataset (gmted_bedmachine_stitched.nc) and land-sea mask (gmted2010_modis-rawdata-lonshift.nc), Antarctica land mask (BedMachineAntarcticaRotate2RotateBack_2020-07-15_v02_lonshift.map_TO_30arcsec.nc), Greenland land mask (BedMachineGreenland-2021-04-20.map_TO_30arcsec.nc), and 30-arcsec datasets encompassing glacier-cover (30arcsec_00_rgi60_World.nc) and ice-sheet cover (30arcsec_00_BM_World.nc).</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.