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363 results for “stack”
Test data for 3D with focal stacking
<p>* the data contains a set of .tiff images of a butterfly wing taken with a Canon</p> <p>* shutter speed: 1/5, ISO: 200</p> <p>* objective Met 20/0.5</p> <p>* speed within stack: 10 um/s, step size: 5 um</p> <p> </p> <p>* Authors: Stefanie Homberger, John Meshreki, Ivo Ihrke, 2023, Universität Siegen / Chair of Computational Sensorics / Communications Engineering</p> <p> </p>
Image stacks for full-body transcription factor expression atlas with completely resolved cell identities in C. elegans
<p>Each image stack presented as zip file. Once decompressed, each folder contain '.ano' linker file, straightening C. elegans L1 images file, the segmentation mask image file and the cell annotation file. The image files are stored in Peng Hanchuan RAW/TIFF format, and the cell annotation file is stored in simple comma separated values format. To visualize the image stack data, drag the '.ano' linker file to VANO interface. </p> <p>vano_win32_1.741.zip contains VANO for worm visualization.</p>
Raw RADseq data for: Population genomics analysis with RAD, reprised: Stacks 2
Open the record for dataset details and reuse information.
Stuck in the mud: experimental taphonomy and computed tomography demonstrate the critical role of sediment in three-dimensional carcass stabilization during early fossil diagenesis - TIFF stack data
Open the record for dataset details and reuse information.
Usuarios mejor valorados en Stack overflow
<p>Dataset que recopila la información más importante a para la evaluación de un usuario de la plataforma Stack overflow. En este dataset se presenta los datos más relevantes para cada uno de los usuarios pertenecientes al top 50 en reputación de este año en curso 2020.</p>
InSAR stack of Kuju volcano in Kyushu, Japan from ALOS ascending track 422 processed with ROI_PAC
<p>A stack of unwrapped interferograms on Kuju volcano, Kyushu, Japan</p> <p>Sensor: ALOS PALSAR ascending track 422 frame 650</p> <p>Time: 2007.01.06 - 2011.01.17, 24 acquisitions, 167 interferograms</p> <p>Processor: ROI_PAC</p> <p>Tropospheric delay estimated from ERA-5 using PyAPS is attached.</p> <p>This is an input dataset for the time series analysis with <a href="https://github.com/insarlab/MintPy/">MintPy</a>.</p>
Stacking microscopy images of the pteropod Limacina bulimoides
<p>Pteropods, a group of holoplanktonic gastropods, are regarded as bioindicators of the effects of ocean acidification on open ocean ecosystems, because their thin aragonitic shells are susceptible to dissolution. While there have been recent efforts to address their capacity for physiological acclimation, it is also important to gain predictive understanding of their ability to adapt to future ocean conditions. However, little is known about the levels of genetic variation and large scale population structuring of pteropods, key characteristics enabling local adaptation. We examined the spatial distribution of genetic diversity in the mitochondrial cytochrome <i>c</i> oxidase I (COI) and nuclear 28S gene fragments, as well as shell shape variation, across a latitudinal transect in the Atlantic Ocean (35°N-36°S) for the pteropod <i>Limacina bulimoides</i>. We observed high levels of genetic variability (COI π = 0.034, 28S π = 0.0021) and strong spatial structuring (COI Φ<sub>ST </sub>= 0.230, 28S Φ<sub>ST </sub>= 0.255) across this transect. Based on the congruence of mitochondrial and nuclear differentiation, as well as differences in shell shape, we identified a primary dispersal barrier in the southern Atlantic subtropical gyre (15-18°S). This barrier is maintained despite the presence of expatriates, a gyral current system, and in the absence of any distinct oceanographic gradients in this region, suggesting that reproductive isolation between these populations must be strong. A secondary dispersal barrier supported only by 28S pairwise Φ<sub>ST </sub>comparisons was identified in the equatorial upwelling region (between 15°N-4°S), which is concordant with barriers observed in other zooplankton species. Both oceanic dispersal barriers were congruent with regions of low abundance reported for a similar basin-scale transect that was sampled two years later. Our finding supports the hypothesis that low abundance indicates areas of suboptimal habitat that result in barriers to gene flow in widely-distributed zooplankton species. Such species may in fact consist of several populations or (sub)species that are adapted to local environmental conditions, limiting their potential for adaptive responses to ocean changes. Future analyses of genome-wide diversity in pteropods could provide further insight into the strength, formation and maintenance of oceanic dispersal barriers.</p>
Image stack, PLY-files and a NEX-file accompanying: A new symmoriiform from the Late Devonian of Morocco: novel jaw function in ancient sharks
<p>We describe the small chondrichthyan Ferromirum oukherbouchi n.gen. et sp. from the Famennian (Late Devonian) of the Maïder region in Morocco. This chondrichthyan is exceptionally well preserved and displays not only mineralized soft tissues but also undeformed cartilages of the head, gills, and shoulder girdle. A reconstruction of the head using 3D-prints revealed a previously unknown kind of jaw articulation. Here, we make the original cropped image stack and PLY-files of the single cartilaginous elements accessible. Additionally, a nexus-file with the character matrix used for the cladogram shown in the article is included.</p>
150 stacks for autofocus testing applications
<p>This dataset includes 150 stacks of images meant to be a testing resource for autofocus applications. The staks were taken over the z axis of the samples, being the best approximation to a sweep of all the possible fields of view in a sample.</p> <p>The images have a resolution of 1388x1040 pixels, and were taken from four different tissue samples (adipose, intestine, kidney, and stomach). For each tissue sample we used two magnifications, 5x and 10x, and each magnification was applied with two bit depths, 8 bits and 16 bits, resulting in a total of 16 categories. </p> <p>Each category contains 10 stacks, except for adipose tissue 10x 8 bits and 16 bits, which contain 5 stacks each.This results in a total of 150 stacks</p>
Wood stack - open-air museum at Kolbuszowa
A photogrammetry model created in Kolbuszowa's open-air museum showcasing an old, XIX-century village in subcarpathian region. Source: Objaverse 1.0 / Sketchfab
Entire confocal z-stack series as .tif image sequences
<p>The manuscript entitled "Parvalbumin-expressing ependymal cells in rostral lateral ventricle wall adhesions contribute to aging-related ventricle stenosis in mice" shows confocal z-stack maximum intensity projections and thin z-plane reconstructions in the figure plates. The entire confocal z-stack image series are provided here as .tif image sequences, respectively the confocal z-stacks of the negative controls as well. The file names refer to the figure numbers and position in the figure plates. For more information about the immunostaining and image acquisition, see the Materials & Methods and Figure legends in the manuscript.</p>
Replication package for How the R Community Creates and Curates Knowledge: An Extended Study of Stack Overflow and Mailing Lists
<p>This dataset was used in the paper: "How the R Community Creates and Curates Knowledge: An Extended Study of Stack Overflow and Mailing Lists", Journal of Empirical Software Engineering, to appear.</p>
Phenotypic differences between interfertile Chlamydomonas species- high-resolution confocal z-stacks for visualizing organelle morphology
<p>This repository contains high-resolution confocal z-stacks of two interfertile <i>Chlamydomonas</i> algal species. The protocol to generate this data is described in the associated publication, "Phenotypic differences between interfertile <i>Chlamydomonas</i> species", and briefly summarized here. Cells were collected from agar plates with TAP medium and suspended in 500 µl of liquid TAP medium in a 1.5 ml eppendorf tube overnight. Cells were pelleted using a microcentrifuge at 2000 x g for 2 min and the supernatant removed. For staining mitochondria, PKMito orange was used at a 1:500 concentration and cells were moved to opaque black microcentrifuge tubes and placed on a tube rotator for 45 min. Cells were pelleted again and washed twice with fresh TAP medium. After the final wash and supernatant removal, cells were resuspended in 25 µl of 1.25% low gelling agar in TAP medium (kept at 45 C). Then 1 µl of the cell/agar mixture was mounted on a #1.5 coverslip with a small wax circle drawn to retain the droplet. Coverslips were flipped and placed on a slide and sealed with VALAP. </p><p>Images were collected on a Nikon CSU W-1 SoRA spinning disk confocal microscope equipped with an ORCA-Fusion BT digital scMOS camera. In order to apply deconvolution in the downstream processing, we needed to oversample (sample beyond Nyquist) in z resolution. To do this, we used a 100×/1.45 NA objective in 2.8× SoRa magnification mode, using ROIs of either 670 × 670 × 81 or 850 × 850 × 91. We imaged with a z-step size of 100 nm for sub-Nyquist sampling. We imaged bright-field first, then 640 nm excitation autofluorescence of chloroplasts, and then 561 nm excitation for PKmito orange dye, because the chloroplasts would bleach after 561 nm excitation. We set exposures to 300 ms with 30% and 50% laser power for 640 and 561, respectively.</p><p>We have included a set of demo data (10 images per species) that accompany the pub hosted on the Arcadia Science webpage (3Dmorpho_demo_data). In addition, we included all of the raw data we collected in this experiment (3Dmorpho_raw_data). Please use the point spread functions (PSF) from the zipped folders for each respective dataset (demo or raw). </p>
An 800-kyr planktonic 𝜹18O stack for the Western Pacific Warm Pool
<p><strong>Our 10 core planktonic </strong>𝜹<strong>18O WPWP stack is available as the "WPWP_planktonic_stack.txt" file, which contains the age, mean </strong>𝜹<strong>18O, and 1 sigma </strong>𝜹<strong>18O alignment uncertainty. The same file is also available under the name "stack.txt" in the Output folder. The stack was produced using alignment software BIGMACS (Lee and Rand et al., 2022).</strong></p><p><strong>The previously published depth and planktonic </strong>𝜹<strong>18O as well as any radiocarbon or additional age constraints for each core used during stack construction can be found in the Inputs folder. This study's BIGMACS produced age models, depth, and planktonic </strong>𝜹<strong>18O data for each core can be found in the Outputs folder under the "results.mat" file or as .txt files in the individual folders named for each core.</strong></p><p><strong>Additional BIGMACS input and output files for planktonic </strong>𝜹<strong>18O from Timor Sea (near the WPWP) core MD01-2378 (Holborn et al., 2005) are provided to demonstrate the alignment and age model differences between using the our new regional planktonic </strong>𝜹<strong>18O WPWP stack and the global benthic </strong>𝜹<strong>18O LR04 stack as alignment targets. </strong> <strong>Differences between the two stacks during MIS 3 and 4 produce a ~17 kyr error in the alignment of the core to the LR04 stack at ~77 kyr ago (depth 8.81 m in core MD01-2378). Because the planktonic </strong>𝛿<strong>18O records near the WPWP share features which differ from those of benthic </strong>𝛿<strong>18O, age model results are expected be more accurate when these planktonic </strong>𝛿<strong>18O records are aligned to the WPWP stack than to a benthic stack.</strong></p><p>Holbourn, A. E., Kuhnt, W., Kawamura, H., Jian, Z. Grootes, P. M., Erlenkeuser, H., and Xu, J.: Stable isotopes on planktic foraminifera of sediment core MD01-2378, PANGAEA [data set], https://doi.org/10.1594/PANGAEA.263757, 2005.</p><p>Lee, T., Rand, D., Lisiecki, L. E., Gebbie, G., and Lawrence, C. E.: Bayesian age models and stacks: Combining age inferences from radiocarbon and benthic 𝜹18O stratigraphic alignment, EGUsphere, 1–29,<a href="https://doi.org/10.5194/egusphere-2022-734"> https://doi.org/10.5194/egusphere-2022-734</a>, 2022.</p><p>Lisiecki, L. E., and Raymo, M. E.: A Pliocene-Pleistocene stack of 57 globally distributed benthic 𝜹18O records, Paleoceanogr., 20,<a href="https://doi.org/10.1029/2004PA001071"> PA1003, https://doi.org/10.1029/2004PA001071</a>, 2005.</p>
Replication Package: Vulnerably (Mis)Configured? Exploring 10 Years of Developers' Q&As on Stack Overflow
<p><strong>Welcome to the public repository for the additional content of the paper "Vulnerably (Mis)Configured? Exploring 10 Years of Developers' Q&As on Stack Overflow", accepted at the International Working Conference on Variability Modelling of Software-Intensive Systems (VAMOS) 2024.</strong></p><p>This repository provides additional information to the conducted exploratory study on configuration-related vulnerabilities, including the following files:</p><ul><li>README.txt</li><li>LICENSE.txt</li><li>DATASET_CONFIG_VULN_SO.csv: sheet containing data of 651 StackOverflow posts, including additional classifications based on manual analyses and automatic topic modeling</li></ul><p><strong>Instructions for using the dataset</strong></p><ol><li>Download and open the dataset (platform-independent CSV file).</li><li>The dataset includes 16 columns (A – P):<br>- Columns A – J: Original data fetched from the BigQuery Stack Overflow dataset (<i>Question_ID, Year_Asked, Question_Title, Question_Body, Question_Tags, View_Count, Question_Rating, Favorite_Count, Status, Answer_Count</i>)<br>- Columns K – N: Manually extracted data from the Stack Overflow posts (<i>System, Configuration Context, Security Context, Topic</i>)<br>- Column O: Data based on the automated topic modeling (<i>Configuration Topic</i>)<br>- Column P: Additional data extracted from the Stack Overflow posts without further classifications (<i>Additional Comments</i>)</li></ol><p><strong>Requirements</strong></p><ul><li>No requirements</li></ul><p><strong>Further information</strong></p><ol><li>The dataset is based on a search string (SQL query; August 1, 2023) applied on the Google BigQuery Stack Overflow dataset:<i> </i><br><i>("secur*") AND ("vulnerabilit*" OR "weakness*" OR "breach*" OR "exposure*" OR "CVE*" OR "CWE*") AND ("config*")</i></li><li>Originally, the dataset included 1,235 post which were limited by the first and second authors to 651 posts (34 deleted posts, 550 posts out of scope) using the following selection criteria: <br>- The post has been created in the last decade (2013-2022).<br>- The post is still available on the Stack Overflow website.<br>- The post is directly connected to a vulnerability-related issue in the context of configuring.</li><li>Topic modeling algorithm used: Latent Dirichlet Allocation (LDA)<br>- Settings: 200 iterations (coherence value = 0.6 for k = 7 to 11), α = k, β = 0.01</li></ol>
Confocal stacks of Cii_beta gamma crystalin_hM4D(Gi)_mCherry transgenic Ciona Larvae
<p>Confocal stacks of Cii_beta gamma crystalin_hM4D(Gi)_mCherry transgenic Ciona Larvae used to generate the panels of Hoyer et al.</p>
Quasi-free-standing AA-stacked bilayer graphene induced by calcium intercalation of the graphene-silicon carbide interface
<p>APRES datasets and LEED images for "Quasi-free-standing AA-stacked bilayer graphene induced by calcium intercalation of<br>the graphene-silicon carbide interface" publication.</p>
Book Stack
# A stack of books * **Formats: OBJ** * Collection link: https://skfb.ly/6ONr8 # ------------------------------------------------------- One or more textures bundled with this project have been created with images from Textures.com. These images may not be redistributed by default. Please visit www.textures.com for more information. Source: Objaverse 1.0 / Sketchfab
Harmonising Contributions: Exploring Diversity in Software Engineering through CQA Mining on Stack Overflow
<p>Community question-and-answering platforms dedicated to software engineering, such as Stack Overflow, have assumed indispensable roles in fostering a thriving global knowledge ecosystem. As these platforms suffer from diversity-related issues, investigating the underlying reasons behind such challenges becomes imperative to devise potential intervention strategies.</p> <p>The proposed study highlights Stack Overflow users’ contribution profiles, both in isolation and relative to various diversity metrics, including GDP and access to electricity. Finally, the study explores whether these contribution profiles extend to the city and state levels.</p> <p>This replication package complements our study, prompting future scholars to further examine our research process or conduct follow up analyses.</p>
A Cross-Continental Analysis of How Regional Cues Shape Developers' Stack Overflow Contributions
<p>Stack Overflow provides a wide range of knowledge for the software development community. Despite the importance of these platforms, several studies have shown that digital information tends to cluster geographically, which limits knowledge access that is otherwise necessary for innovation.</p> <p>The proposed study highlights the dynamics of users from different geographical backgrounds within Stack Overflow, which entails intra-country interactions, predominant topics of discouse, as well as their communication patterns. Finally, the study highlights that regional behavioural variations stem beyond cultural factors, encompassing technological advancement, entrepreneurial ventures, and workforce composition. </p> <p>This replication package is provided for those interested in further examining our research methodology.</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.