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650 results for “Workflow”
Dataset with results of "Joint 2D to 3D image registration workflow for comparing multiple slice photographs and CT scans of apple fruit with internal disorders"
<p><strong>Summary</strong></p> <p>This dataset contains all results from the paper "Joint 2D to 3D image registration workflow for comparing multiple slice photographs and CT scans of apple fruit with internal disorders". Most notably, this dataset contains the corresponding CT slices for slice photographs of 1347 'Kanzi' apples. This dataset also contains data of the results section, metadata required to make the registration code run, and segmentation masks of the apple slice photographs. The "raw" data that was used to produce these results can be found in another Zenodo dataset: <a href="../record/8167285">https://zenodo.org/record/8167285</a>.</p> <p><br><strong>Description</strong></p> <ul> <li><strong>registered ct photo side-by-side view.zip </strong>is the easiest way to explore the registered CT photo image pairs. For every apple slice it contains a .png image consisting of the slice photo, registered CT slice and a combined view (photo=green, CT=purple) side-by-side. The resolution was reduced to reduce the file size.</li> <li><strong>registered ct slices.zip </strong>contains the full resolution CT slices as .tiff files. The matching slice photos can be found in <strong>slice_photos_crop.zip</strong> in <a href="../record/8167285">https://zenodo.org/record/8167285</a>.</li> <li><strong>photo metadata.zip </strong>contains all metadata files required to run the code on <a href="https://github.com/D1rk123/apple_photo_ct_workflow">https://github.com/D1rk123/apple_photo_ct_workflow</a>.</li> <li><strong>results.zip</strong> contains the IPCED annotations and per apple metrics that were used to calculate all the average metrics and tables in the results section of the paper.</li> <li><strong>subset experiment registered annotation slice.zip </strong>contains the full resolution CT slices of the annotation slice in the subset experiment as .tiff files.</li> <li><strong>segmentation masks.zip </strong>contains slice photo segmentation masks as .png images. There are subfolders for the training set, the test set and the masks used for the workflow in the paper.</li> </ul> <p><br><strong>Research group</strong><br>This dataset was produced by the Computational Imaging group at Centrum Wiskunde & Informatica (CI-CWI) in Amsterdam, The Netherlands: <a href="https://www.cwi.nl/research/groups/computational-imaging">https://www.cwi.nl/research/groups/computational-imaging</a></p> <p><strong>Contact details</strong><br>dirk [dot] schut [at] cwi [dot] nl</p> <p><strong>Acknowledgments</strong><br>This work was funded by the Dutch Research Council (NWO) through the UTOPIA project (ENWSS.2018.003).</p>
Data accompanying "Standardised workflow for mass spectrometry-based single-cell proteomics data analysis using the scp package"
<p>Data and scripts accompanying the paper <em>Standardised workflow for mass spectrometry-based single-cell proteomics data analysis using scp</em>.</p> <ul> <li>d.zip contains raw MS data from samples run on timsTOF SCP.</li> <li>raw.zip contains raw MS data from samples run on orbitrap mass spectrometers (Orbitrap Fusion Lumos Tribrid and Exploris 240).</li> <li>mzML.zip contains raw MS data in mzML format from all samples.</li> <li>sage.zip contains output results from the sage software (results.sage.tsv and quant.tsv) as well as configuration files (results.json) for both orbitrap (cbio) and timsTOF (giga) data.</li> <li>sample_annotation.zip contains csv files with samples annotation for each acquisition batch and used to build the colData.</li> <li>example_subset.zip contains csv files for short example datasets displayed in the paper.</li> <li>scp.rds file contains the initial QFeatures object of the full dataset with 56 PSM sets corresponding to the 56 MS runs.</li> <li>build_QF_dataset.Rmd file is the script used to build the scp.rds file described above from sage outputs and sample annotation.</li> </ul> <p>These file descriptions are also available in the README.txt file.</p>
Patient-Assisted Compression in 3D - Impact on Image Quality and Workflow
ClinicalTrials.gov study NCT03456427. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Improved Procedural Workflow For Catheter Ablation Of Paroxysmal AF With High Density Mapping System And Advanced Technology
ClinicalTrials.gov study NCT05005143. IPD Sharing: Not stated. Countries: 0. Publications: 1.
Patient-Assisted Compression - Impact on Image Quality and Workflow
ClinicalTrials.gov study NCT03196635. IPD Sharing: NO. Countries: 1. Publications: 0.
Effectiveness Evaluation of the Digital Workflow for Single-implant Immediate Loading
ClinicalTrials.gov study NCT05526677. IPD Sharing: NO. Countries: 0. Publications: 6.
Study of the Efficiency and Workflow of Femtosecond Laser Assisted Cataract Surgery in a Spanish Public Hospital
ClinicalTrials.gov study NCT03931629. IPD Sharing: Not stated. Countries: 0. Publications: 1.
Glioma Adaptive Radiotherapy With Development of an Artificial Intelligence Workflow
ClinicalTrials.gov study NCT06492486. IPD Sharing: NO. Countries: 0. Publications: 23.
Patient Specific Virtual Reality for Simulation of Spine Procedures: an Intelligent Image Segmentation, Registration and 3-dimensional Visualization in a Unified Virtual Reality Workflow for Image Gui
ClinicalTrials.gov study NCT06714539. IPD Sharing: UNDECIDED. Countries: 0. Publications: 1.
Adapt and Incorporate dDPP Into Clinical Workflows
ClinicalTrials.gov study NCT04049500. IPD Sharing: YES. Countries: 0. Publications: 2.
LSI (Lesion Index) Workflow Observational Study
ClinicalTrials.gov study NCT03906461. IPD Sharing: UNDECIDED. Countries: 5. Publications: 0.
Data from: From benchtop to desktop: important considerations when designing amplicon sequencing workflows
Open the record for dataset details and reuse information.
Data from: Gene prediction and annotation in Penstemon (Plantaginaceae): a workflow for marker development from extremely low-coverage genome sequencing
Open the record for dataset details and reuse information.
Data from: Setup in a clinical workflow and impact on radiotherapy routine of an in vivo dosimetry procedure with an electronic portal imaging device
Open the record for dataset details and reuse information.
SISTER: Experimental Workflows, Product Generation Environment, and Sample Data, V004
The Space-based Imaging Spectroscopy and Thermal pathfindER (SISTER) activity originated in support of the NASA Earth System Observatory's Surface Biology and Geology (SBG) mission to develop prototype workflows with community algorithms and generate prototype data products envisioned for SBG. SISTER focused on developing a data system that is open, portable, scalable, standards-compliant, and reproducible. This collection contains EXPERIMENTAL workflows and sample data products, including (a) the Common Workflow Language (CWL) process file and a Jupyter Notebook that run the entire SISTER workflow capable of generating experimental sample data products spanning terrestrial ecosystems, inland and coastal aquatic ecosystems, and snow, (b) the archived algorithm steps (as OGC Application Packages) used to generate products at each step of the workflow, (c) a small number of experimental sample data products produced by the workflow which are based on the Airborne Visible/Infrared Imaging Spectrometer-Classic (AVIRIS or AVIRIS-CL) instrument, and (d) instructions for reproducing the sample products included in this dataset. DISCLAIMER: This collection contains experimental workflows, experimental community algorithms, and experimental sample data products to demonstrate the capabilities of an end-to-end processing system. The experimental sample data products provided have not been fully validated and are not intended for scientific use. The community algorithms provided are placeholders which can be replaced by any user's algorithms for their own science and application interests. These algorithms should not in any capacity be considered the algorithms that will be implemented in the upcoming Surface Biology and Geology mission.
Genome-wide profiling of transcription factor-DNA binding interactions in Candida albicans: a comprehensive CUT&RUN method and data analysis workflow
GEO Series GSE193803. Candida albicans. 12 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
A microfluidics workflow for spatial analysis of microenvironmental gradient impact on cancer cell phenotypes
GEO Series GSE242233. Homo sapiens. 3 samples. Type: Expression profiling by high throughput sequencing.
Elucidating DNA-binding protein dynamics in Salmonella Typhimurium within macrophages using a breakthrough low-input ChIP-exo workflow [RNA-seq]
GEO Series GSE270061. Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S. 4 samples. Type: Expression profiling by high throughput sequencing.
Benchmarking of RNA-sequencing analysis workflows using whole-transcriptome RT-qPCR expression data
GEO Series GSE83402. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
From phenotypical investigation to RNA-sequencing for gene expression analysis: a workflow for single and pooled rare cells
GEO Series GSE212814. Homo sapiens. 10 samples. Type: Expression profiling by high throughput sequencing.
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
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Annotated Behaviour and Observability Dataset (ABODe)
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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.