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.
764
datasets available to search
ShareScore release 0.9.0
Dataset results
764 results for “foraminifera”
Twenty-two thousand Common Era benthic foraminifera from the Santa Barbara Basin
<p>Here we provide an image and 2D shape dataset of recent benthic foraminifera from two core records sampled from the center of the Santa Barbara Basin that span an ~800-year-long interval during the Common Era (1249-2008 CE). Information on more than 36,000 objects is included, of which more than 22,000 are complete or partially damaged benthic foraminifera. Skeletonized objects classified also include planktonic foraminifera, ostracods, pteropods, diatoms, radiolarians, fish teeth and skeletal structures, shark dermal denticles, and benthic foraminifer test fragments. The image dataset was produced using a high-throughput imaging method (<em>AutoMorph</em>) designed to extract 2D data from photographic images of fossils. This repository contains 8 distinct data types uploaded as distinct files, and includes the following:</p> <ol> <li><strong><em>bulk_images.zip</em>: </strong>Bulk images with objects identified by <em>segment</em> boxed in red</li> <li><strong><em>individual_images.zip</em>:</strong> EDF images of individual objects within the dataset</li> <li><strong><em>identification_files.zip</em>:</strong> Classifications for individual objects, including both general categories and species-specific classifications (when possible) for benthic foraminifera</li> <li><strong><em>cleaning_scripts.zip</em>:</strong> Directory containing R scripts used to clean object category misspellings or inconsistencies</li> <li><strong><em>outline_images.zip</em>:</strong> EDF images of objects successfully extracted for 2D outlines and measurements; included for quality control. This includes one text file (unextracted_objects_2D.txt) listing objects with failed extractions</li> <li><strong><em>2d_coordinates.zip</em>:</strong> CSV files containing all extracted outline coordinates for each of the samples imaged, a text file of failed 2D extractions (unextracted_objects_2D.txt), and a summary CSV file including coordinates for all extracted objects (all_coordinates.csv)</li> <li><strong><em>2d_properties.zip</em>:</strong> 2D measurements for all objects</li> <li><strong><em>metadata_tables.zip</em>: </strong>Tables 1, 2, and 3 and Supplementary Table 1 from a forthcoming data descriptor publication, describing sample metadata, including site coordinates, sample names, object information, and summary statistics</li> </ol> <p>The dataset we provide here comprises the most extensive publicly available archive of benthic foraminiferal morphology and 2D morphological variation to date.</p>
Last Glacial Maximum planktonic foraminifera species assemblages
<p>Last Glacial Maximum planktonic foraminifera species assemblages used in Jonkers et al. "Strong temperature gradients in the ice age North Atlantic Ocean revealed by plankton biogeography", Nature Geoscience, 2023, <a href="https://www.nature.com/articles/s41561-023-01328-7">https://www.nature.com/articles/s41561-023-01328-7</a>. The data are split by ocean basin and contain extensive metadata and saved as a list. The data can be opened using the open source software R. This file contains 2,085 assemblages from 647 globally distributed sites.</p><p>An update to this synthesis with more data is available at <a href="https://doi.pangaea.de/10.1594/PANGAEA.962852">PANGAEA</a>.</p>
Oxygen concentration profiles data and code from: Langet et al., 2023, Single-celled bioturbators: benthic foraminifera mediate oxygen penetration and prokaryotic diversity in intertidal sediment
<p>This archive contains the data of measured oxygen profile and the scripts used to generate the oxygen surface fluxes for the article</p><p>Langlet, D., Mermillod-Blondin, F., Deldicq, N., Bauville, A., Duong, G., Konecny, L., Hugoni, M., Denis, L., and Bouchet, V. M. P.: Single-celled bioturbators: benthic foraminifera mediate oxygen penetration and prokaryotic diversity in intertidal sediment, Biogeosciences, 20, 4875–4891, https://doi.org/10.5194/bg-20-4875-2023, 2023.</p>
Size normalizing planktonic Foraminifera abundance in the water column
<p>Data and R code for the paper <strong>Size normalizing planktonic Foraminifera abundance in the water column</strong> (<a href="https://doi.org/10.1002/lom3.10637">https://doi.org/10.1002/lom3.10637</a>) by Sonia Chaabane, Thibault de Garidel-Thoron, Xavier Giraud, Julie Meilland, Geert-Jan A. Brummer, Lukas Jonkers, P. Graham Mortyn, Mattia Greco, Nicolas Casajus, Olivier Sulpis, Michal Kucera, Azumi Kuroyanagi, Hélène Howa, Gregory Beaugrand, Ralf Schiebel</p> <p> </p> <p>The codes serve to generate a new normalization approach for estimating the abundance of planktonic Foraminifera (ind/m³) within the specified collection size fraction range. Data utilized in this study are sourced from the FORCIS database, containing records collected from the global ocean at various depths spanning the past century. A cumulative distribution across size fractions is identified and modeled using a Michaelis-Menten function. This modeling results in multiplication factors enabling the normalization of one fraction to any other size fraction equal to or larger than 100 µm. The resultant size normalization model is then tested across various depths and compared against a previous size normalization solution.</p> <p>Scripts written by Sonia Chaabane.</p> <p>DATA SOURCES</p> <ul> <li>FORCIS database: <a href="https://doi.org/10.5281/zenodo.7390791" target="_new">https://doi.org/10.5281/zenodo.7390791</a></li> </ul> <p>DATA</p> <ol> <li>data_raw_from_excel.RDS</li> </ol> <p>CODES</p> <ol> <li>Code 1_Prepare the data.R: Reads the data and prepares it for analysis.</li> <li>Code 2_Data-model_training.R: Analyzes the data and builds the model.</li> <li>Code 2_MM_confidence interval_all oceans_depths_seasons.R: Analyzes the data and computes confidence intervals across all oceans, depths, and seasons.</li> <li>Code 3_Validation.R: Compares actual vs. estimated number concentrations.</li> <li>Code 4_Test with berger scheme.R: Compares actual vs. estimated number concentrations using Berger 1969 correction scheme.</li> <li>Code 5_Cross validation_Retailleau et al.R: Applies the FORCIS number concentration-size correction scheme on an independent dataset.</li> <li>Code 6_Retailleau et al. using berger approach.R: Compares actual vs. estimated number concentrations using Berger 1969 correction scheme from an independent dataset.</li> <li>function.R: Additional functions used in the analysis.</li> </ol> <p> </p>
Fig. 77 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 77 Cenomanian paleogeographic distribution of Rajkanella hottingerinaformis.
Fig. 81 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 81 Cenomanian paleogeographic distribution of Scandonea? pumila.
Fig. 65 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 65 Cenomanian paleogeographic distribution of Pseudorhapydionina chiapanensis.
Fig. 71 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 71 Cenomanian paleogeographic distribution of Praetaberina bingistani.
Fig. 63 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 63 Cenomanian paleogeographic distribution of Pseudorhapydionina dubia.
Fig. 61 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 61 Cenomanian paleogeographic distribution of Pseudorhapydionina anglonensis.
Fig. 57 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 57 Cenomanian paleogeographic distribution of Nummofallotia? apula.
Fig. 67 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 67 Cenomanian paleogeographic distribution of Pseudorhapydionina laurinensis.
Fig. 55 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 55 Cenomanian paleogeographic distribution of Vidalina radoicicae.
Fig. 53 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 53 Cenomanian paleogeographic distribution of Nummoloculinodonta akhdarensis.
Fig. 51 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 51 Cenomanian paleogeographic distribution of Planinummoloculina gnosi.
Fig. 49 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 49 Cenomanian paleogeographic distribution of Pseudonummoloculina? cf. irregularis
Fig. 73 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 73 Cenomanian paleogeographic distribution of Praetaberina apula.
Fig. 47 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 47 Cenomanian paleogeographic distribution of Pseudonummoloculina? regularis.
Fig. 79 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 79 Cenomanian paleogeographic distribution of Scandonea? phoenissa.
Fig. 59 in "Larger" Benthic Foraminifera Of The Cenomanian. A Review Of The Identity And The Stratigraphic And Palaeogeographic Distribution Of Non-Fusiform Planispiral (Or Near-Planispiral) Forms
Fig. 59 Cenomanian paleogeographic distribution of Peneroplis parvus.
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.