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5
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ShareScore release 0.9.0
Dataset results
5 results for “SPIM”
IDDR-SPIM dataset
<p>This dataset includes nine types of images, and shows the superresolution results of IDDR-SPIM and ID enhanced confocal microscopy.</p>
An automated workflow for parallel processing of large multiview SPIM recordings
<p>Selective Plane Illumination Microscopy (SPIM) allows to image developing organisms in 3D at unprecedented temporal resolution over long periods of time. The resulting massive amounts of raw image data requires extensive processing interactively via dedicated graphical user interface (GUI) applications. The consecutive processing steps can be easily automated and the individual time points can be processed independently, which lends itself to trivial parallelization on a high performance computing (HPC) cluster. Here, we introduce an automated workflow for processing large multiview, multichannel, multiillumination time-lapse SPIM data on a single workstation or in parallel on a HPC cluster. The pipeline relies on <em>snakemake</em> to resolve dependencies among consecutive processing steps and can be easily adapted to any cluster environment for processing SPIM data in a fraction of the time required to collect it.</p>
SPIM example dataset for multiview registration using BigStitcher
<p><strong>Registration example dataset for</strong> <strong><a href="https://imagej.net/plugins/bigstitcher/multiview-mode">BigStitcher's MultiView Mode</a></strong></p> <ul> <li>SPIM-5angle-3Ch-dataset_rescaled.zip (2.49 GB unzipped)</li> </ul> <p>This is a 5-angle SPIM dataset imaged with the Zeiss Lightsheet.Z1 featuring a polyclad flatworm juvenile of the species <em>Echinoplana celerrima</em>. The dataset includes 3 channels (405 - nuclei, 488 muscle fibres and 561 - cilia).</p> <p>Beads can be detected only in the 561 channel. The transformation of this channel can then be duplicated and applied to all other channels.</p> <p> </p>
A Real-World Study to Evaluate the Clinical Performance and Safety of da Vinci SP Surgical System for Single-Port Colorectal Surgeries（SPiM-RWS-CR）
ClinicalTrials.gov study NCT06141421. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
A Real-World Study to Evaluate the Clinical Performance and Safety of da Vinci SP Surgical System for Single-Port Gynecological Surgeries(SPiM-RWS-GYN)
ClinicalTrials.gov study NCT06082011. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
ScienceDex guides
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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.