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Data Standards > Spatial Transcriptomics missing some manifests #698

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jen-dfci opened this issue Oct 29, 2024 · 2 comments · Fixed by #704
Closed

Data Standards > Spatial Transcriptomics missing some manifests #698

jen-dfci opened this issue Oct 29, 2024 · 2 comments · Fixed by #704
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@onursumer

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@jen-dfci
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jen-dfci commented Oct 29, 2024 •
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Spatial Transcriptomics manifests should include (display name listed, schema name in parentheses):

  • Slide-seq Level 1 (Slide-seqLevel1)
  • Slide-seq Level 2 (Slide-seqLevel2)
  • Slide-seq Level 3 (Slide-seqLevel3)
  • NanoString GeoMx DSP ROI DCC Segment Annotation Metadata (NanoStringGeoMxDSPROIDCCSegmentAnnotationMetadata)
  • NanoString GeoMx DSP ROI RCC Segment Annotation Metadata (NanoStringGeoMxDSPROIRCCSegmentAnnotationMetadata)

A little more difficult:
MERFISH is submitted with Imaging Level 2 manifest. Not sure if that can be pulled in as well.
@onursumer onursumer mentioned this issue Oct 31, 2024
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@onursumer onursumer self-assigned this Oct 31, 2024
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@jen-dfci I added the missing manifests except MERFISH. You can preview at https://htan-portal-nextjs-git-fork-onursumer-add-missing-s-d5d625-htan.vercel.app/standard/spatial_transcriptomics

Adding MERFISH seems tricky without some manual hack.

@jen-dfci
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jen-dfci commented Nov 5, 2024

that makes sense. thank you, @onursumer !

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Add missing spatial transcriptomics manifests onursumer/htan-portal
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