metadata.yaml

about: []
access:
- schemaKey: AccessRequirements
  status: dandi:OpenAccess
assetsSummary:
  approach:
  - name: microscopy approach; cell population imaging
    schemaKey: ApproachType
  dataStandard:
  - identifier: RRID:SCR_015242
    name: Neurodata Without Borders (NWB)
    schemaKey: StandardsType
  measurementTechnique:
  - name: analytical technique
    schemaKey: MeasurementTechniqueType
  numberOfBytes: 18442605394
  numberOfFiles: 10
  numberOfSubjects: 10
  schemaKey: AssetsSummary
  species:
  - identifier: http://purl.obolibrary.org/obo/NCBITaxon_6239
    name: Caenorhabditis elegans
    schemaKey: SpeciesType
  variableMeasured:
  - PlaneSegmentation
  - ProcessingModule
citation: Dunn, Raymond; Sprague, Daniel; Borchardt, Jackson; Bubnis, Greg; Kato,
  Saul (2024) NeuroPAL volumetric images (Version draft) [Data set]. DANDI archive.
  https://dandiarchive.org/dandiset/000472/draft
contributor:
- includeInCitation: true
  name: Dunn, Raymond
  schemaKey: Person
- affiliation: []
  email: daniel.y.sprague@gmail.com
  includeInCitation: true
  name: Sprague, Daniel
  roleName: []
  schemaKey: Person
- includeInCitation: true
  name: Borchardt, Jackson
  schemaKey: Person
- includeInCitation: true
  name: Bubnis, Greg
  schemaKey: Person
- email: saul.kato@ucsf.edu
  includeInCitation: true
  name: Kato, Saul
  roleName:
  - dcite:ContactPerson
  schemaKey: Person
dateCreated: '2023-04-06T19:58:28.232167+00:00'
datePublished: '2024-10-09T15:02:37.386939+00:00'
description: "Partially labeled NeuroPAL volumetric images produced by the Kato lab
  at UCSF as part of an effort to add to the corpus of existing labeled data to facilitate
  the development of automatic cell identification algorithms. We hope that making
  these datasets more easily accessible in a centralized location like DANDI will
  significantly speed up development by allowing new researchers to start working
  on algorithms without the need to build up their own full dataset of training data
  beforehand. \n\nAs part of this effort, we also propose a novel extension to the
  NWB data format to allow for multichannel volumetric data.\n\nContents:\n\nSubject
  (C. elegans subject) - contains relevant metadata about the experimental subject\n\nAcquisition,
  \"NeuroPALImageRaw\" (MultiChannelVolume) - contains the raw image and associated
  metadata with dimensions (X, Y, Z, C)\n\nProcessing,  \"NeuroPAL\", \"VolumeSegmentation\"
  (VolumeSegmentation) - contains a list of neuron centers and associated IDs (X,
  Y, Z, weight, ID)\n\nProcessing, \"NeuroPAL\", \"ImagingVolume\" (ImagingVolume)
  - contains the metadata associated with the imaging acquisition\n\nProcessing, \"NeuroPAL\",
  \"OpticalChannelRefs\" (OpticalChannelReferences) - contains the order of the optical
  channels in the image\n\nProcessing, \"ProcessedImage\", \"Hist_match_med_filt\"
  - contains the processed NeuroPAL image with dimensions (X,Y,Z,C)"
ethicsApproval: []
id: DANDI:000472/draft
identifier: DANDI:000472
keywords: []
license:
- spdx:CC-BY-4.0
manifestLocation:
- https://api.dandiarchive.org/api/dandisets/000472/versions/draft/assets/
name: NeuroPAL volumetric images
protocol: []
publishedBy:
  endDate: '2024-10-09T15:02:37.386939+00:00'
  id: urn:uuid:78239632-6a08-4620-8b01-1ef66cf4c9d3
  name: DANDI publish
  schemaKey: PublishActivity
  startDate: '2024-10-09T15:02:37.386939+00:00'
  wasAssociatedWith:
  - id: urn:uuid:804ad183-e3ae-467c-8549-a462cba713fd
    identifier: RRID:SCR_017571
    name: DANDI API
    schemaKey: Software
    version: 0.1.0
relatedResource: []
repository: https://dandiarchive.org
schemaKey: Dandiset
schemaVersion: 0.6.4
studyTarget: []
url: https://dandiarchive.org/dandiset/000472/draft
version: draft
wasGeneratedBy: []