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Scientific Databases

Biom includes connectors to four major public scientific data repositories. You can browse, search, and mount datasets directly into your viewer — no download required.

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DANDI Archive

DANDI is a public archive for neurophysiology and behavioral data.
  • Search neurophysiology and behavioral datasets
  • Mount NWB files via HTTP range streaming (no full download needed)
  • Mount OME-Zarr and LINDI files
  • Pagination — cursor-based, 25 results per page
  • Save to Biom Drive — download datasets for offline access
  • Signed URLs — 6-hour TTL for streaming access

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IDR (Image Data Resource)

IDR is a repository of reference microscopy datasets.
  • Browse curated microscopy datasets
  • Mount OME-Zarr from UK1S3 server
  • Metadata display — SizeX/Y/Z/C/T, pixel type
  • Thumbnail previews in search results
  • Conversion option — convert to OME-TIFF if Zarr is unavailable

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Allen Brain Cell Atlas

The Allen Brain Atlas provides reference brain datasets. Curated datasets include:
DatasetDescription
ABC Atlas WMB (10Xv2)Whole Mouse Brain, 10X Genomics v2
ABC Atlas WMB (10Xv3 Multiome)Whole Mouse Brain, 10X Genomics v3 Multiome
MERFISH Whole Mouse BrainSpatially resolved transcriptomics
Allen CCFv3 Reference Atlas3D volumetric atlas, 10um resolution
Allen Mouse Brain ConnectivityConnectome data
Projection DensityProjection density maps
Datasets are accessed via direct S3 URLs and loaded as Zarr or Neuroglancer Precomputed tiles.

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AWS Open Data

Biom includes connectors to select AWS Open Data datasets:

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Open NeuroData

DatasetResolutionDescription
Bock 20114x4x45 nmTEM, mouse visual cortex
Kasthuri 20153x3x30 nmEM connectome

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HuBMAP

DatasetChannelsDescription
Human Kidney CODEX20Kidney tissue imaging
Human Intestine CODEX16Intestine tissue imaging

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Earth observation

DatasetDescription
GOES-16NOAA satellite imagery (NetCDF)
Sentinel-2 L2ACopernicus/ESA, 10m resolution, 13 bands (Cloud-Optimized GeoTIFF)

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Mount by URL

You can mount any dataset by providing a direct URL:
  • Zarr — any HTTP-accessible Zarr store
  • NWB — any HTTP-accessible NWB file
  • Neuroglancer Precomputed — any Neuroglancer-compatible tile source
Simply paste the URL into the database mount dialog and Biom will auto-detect the format.

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Drag and drop

You can drag dataset entries from the database browser directly onto a pane to load them instantly. This works across all four database connectors.