Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
5,039
datasets available to search
ShareScore release 0.9.0
Dataset results
5,039 results for “Natural history collections”
Herbarium specimen image of Alopecurus ventricosus Pers., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Veronica tournefortii C.C.Gmelin, part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Carex pedata L., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Veronica persica Poir., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Cyclachaena xanthiifolia Fresen., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Alopecurus arundinaceus Poir., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Eriophorum vaginatum L., part of the collection of Natural History Museum, University of Tartu
Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br><br>Content of this deposition:<br><br>- A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br>- A JPEG image file of the scanned herbarium sheet.<br>- A lossless TIFF image from which the JPEG image has been derived.
Herbarium specimen image of Linnaea borealis L., part of the collection of Natural History Museum, University of Tartu
<p>Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br> <br> Content of this deposition:<br> <br> - A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br> - Two JPEG image files of the scanned herbarium sheet, one of the specimen itself and one of its label (indicated by_lab).<br> - Two lossless TIFF images from which the JPEG images have been derived.</p>
Herbarium specimen image of Lobelia dortmanna L., part of the collection of Natural History Museum, University of Tartu
<p>Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br> <br> Content of this deposition:<br> <br> - A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br> - Two JPEG image files of the scanned herbarium sheet, one of the specimen itself and one of its label (indicated by_lab).<br> - Two lossless TIFF images from which the JPEG images have been derived.</p>
Herbarium specimen image of Allium angulosum L., part of the collection of Natural History Museum, University of Tartu
<p>Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br> <br> Content of this deposition:<br> <br> - A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br> - Two JPEG image files of the scanned herbarium sheet, one of the specimen itself and one of its label (indicated by_lab).<br> - Two lossless TIFF images from which the JPEG images have been derived.</p>
Herbarium specimen image of Asplenium ruta-muraria L., part of the collection of Natural History Museum, University of Tartu
<p>Part of a training dataset of scanned herbarium specimens. The data paper and a summary landing page will be published on Zenodo as it gets published.<br> <br> Content of this deposition:<br> <br> - A JSON-LD datafile listing the label data associated with this herbarium specimen. The Darwin and Dublin Core data standards are used for most values.<br> - Two JPEG image files of the scanned herbarium sheet, one of the specimen itself and one of its label (indicated by_lab).<br> - Two lossless TIFF images from which the JPEG images have been derived.</p>
Natural history specimens collected and/or identified and deposited.
Natural history specimen data collected and/or identified by John Howieson, <a href="https://orcid.org/0000-0003-1378-293X">https://orcid.org/0000-0003-1378-293X</a>. Claims or attributions were made on Bionomia, <a href="http://bionomia.net">https://bionomia.net</a> using specimen data from the Global Biodiversity Information Facility, <a href="https://gbif.org">https://gbif.org</a>.
The Natural History Museum's collection of Dalbergia, Pterocarpus and the Phaseolinae subtribe
<p>In 2018 the Natural History Museum (NHMUK, herbarium code: BM) undertook a pilot digitisation project together with the Royal Botanic Gardens Kew (project Lead) and the Royal Botanic Garden Edinburgh to collectively digitise non-type herbarium material of the subtribe <em>Phaseolinae</em> and the genera <em>Dalbergia </em>L.f. and <em>Pterocarpus</em> Jacq. (rosewoods and padauk), all from the economically important family of legumes (<em>Leguminosae</em> or <em>Fabaceae</em>). </p> <p>These taxonomic groups were chosen for two case studies using the herbarium collections to support the aims of the UK’s Department for Environment Food & Rural Affairs (DEFRA)-allocated, Official Development Assistance (ODA) funding: study 1 - to support the development of dry beans as a sustainable and resilient crop; study 2 - to aid conservation and sustainable use of rosewoods and padauk.</p> <p>We present the images and metadata for 11,222 NHMUK specimens. This includes label transcription and georeferencing, along with summary data on geographic, taxonomic, collector and temporal coverage. We also provide timings and the methodology for our transcription and georeferencing protocols. Approximately 35% of specimens digitised were collected in ODA-listed countries, in tropical Africa, but also in south east Asia and South America.</p>
The dataset of the Global Collections survey of natural history collections
<p>From 2016 to 2018, we surveyed the world’s largest natural history museum collections to begin mapping this globally distributed scientific infrastructure. The resulting dataset includes 73 institutions across the globe. It has:</p> <ul> <li> <p>Basic institution data for the 73 contributing institutions, including estimated total collection sizes, geographic locations (to the city) and latitude/longitude, and Research Organization Registry (ROR) identifiers where available.</p> </li> <li> <p>Resourcing information, covering the numbers of research, collections and volunteer staff in each institution.</p> </li> <li> <p>Indicators of the presence and size of collections within each institution broken down into a grid of 19 collection disciplines and 16 geographic regions.</p> </li> <li> <p>Measures of the depth and breadth of individual researcher experience across the same disciplines and geographic regions.</p> </li> </ul> <p>This dataset contains the data (raw and processed) collected for the survey, and specifications for the schema used to store the data. It includes:</p> <ol> <li>A diagram of the MySQL database schema.</li> <li>A SQL dump of the MySQL database schema, excluding the data.</li> <li>A SQL dump of the MySQL database schema with all data. This may be imported into an instance of MySQL Server to create a complete reconstruction of the database.</li> <li>Raw data from each database table in CSV format.</li> <li>A set of more human-readable views of the data in CSV format. These correspond to the database tables, but foreign keys are substituted for values from the linked tables to make the data easier to read and analyse.</li> <li>A text file containing the definitions of the size categories used in the collection_unit table.</li> </ol> <p>The global collections data may also be accessed at<a href="https://rebrand.ly/global-collections"> https://rebrand.ly/global-collections</a>. This is a preliminary dashboard, constructed and published using Microsoft Power BI, that enables the exploration of the data through a set of visualisations and filters. The dashboard consists of three pages:</p> <p><strong>Institutional profile:</strong> Enables the selection of a specific institution and provides summary information on the institution and its location, staffing, total collection size, collection breakdown and researcher expertise.</p> <p><strong>Overall heatmap:</strong> Supports an interactive exploration of the global picture, including a heatmap of collection distribution across the discipline and geographic categories, and visualisations that demonstrate the relative breadth of collections across institutions and correlations between collection size and breadth. Various filters allow the focus to be refined to specific regions and collection sizes.</p> <p><strong>Browse:</strong> Provides some alternative methods of filtering and visualising the global dataset to look at patterns in the distribution and size of different types of collections across the global view.</p>
Natural history specimens collected and/or identified and deposited.
Natural history specimen data collected and/or identified by Copas, Kyle, <a href="https://orcid.org/0000-0002-6590-599X">https://orcid.org/0000-0002-6590-599X</a>. Claims were made on Bloodhound, <a href="http://bloodhound-tracker.net">https://bloodhound-tracker.net</a> using specimen data from the Global Biodiversity Information Facility, <a href="https://gbif.org">https://gbif.org</a>.
Fig. 6.1. Shell digitised with different methods. The photogrammetry model was captured with a 100 in Handbook of best practice and standards for 2D+ and 3D imaging of natural history collections
Fig. 6.1. Shell digitised with different methods. The photogrammetry model was captured with a 100 mm Macro lens and processed with Agisoft Photoscan. The visual comparison of the mollusc shows a similar level of detail between photogrammetry and MechScan for the external surfaces, with still a bit more detail for the MechScan. The HDI Advance has a much lower resolution.
Fig. 5.6 in Handbook of best practice and standards for 2D+ and 3D imaging of natural history collections
Fig. 5.6. Decimation of a 3D model. The four parts show a 3D model in various degrees of reducing the amount of faces. In the left upper corner is the original and rotating clockwise are the models at 50%, 75% and 90% decimation. Until 75% there is hardly any difference noticeable, while at 90% the cracks become less deep and the faces become more visible.
Fig. 6.2 in Handbook of best practice and standards for 2D+ and 3D imaging of natural history collections
Fig. 6.2. Texture comparison between photogrammetry and MechScan (above) and an actual picture captured by a Canon 700D with 100 mm macro lens of the shell below.
Fig. 5.3 in Handbook of best practice and standards for 2D+ and 3D imaging of natural history collections
Fig. 5.3. Micro-contrast enhancement in DxO OpticsPro 11. A crop of the original image is on the left, one of the post-processed pictures on the right.
Fig. 5.4 in Handbook of best practice and standards for 2D+ and 3D imaging of natural history collections
Fig. 5.4. Micro-contrast enhancement in DxO OpticsPro 11. The original image is on the left, the postprocessed picture on the right. The post-processed picture looks more crisp and shows more details than the original one as the washed-out appearance has gone.
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.