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Merge branch 'main' into jpuerto/merfish-release
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jpuerto-psc authored Jul 12, 2024
2 parents 2d8d713 + d85df0c commit d1ee078
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Expand Up @@ -48,4 +48,3 @@ Excel and TSV templates for this schema will be available when the draft next-ge
| <code>lab_processed\/images\/.*</code> || Processed image files |
| <code>lab_processed\/images\/[^\/]+\.ome\.tiff</code> (example: <code>lab_processed/images/HBM892.MDXS.293.ome.tiff</code>) || OME-TIFF files (multichannel, multi-layered) produced by the microscopy experiment. If compressed, must use loss-less compression algorithm. For Visium this stitched file should only include the single capture area relevant to the current dataset. For GeoMx there will be one OME TIFF file per slide, with each slide including multiple AOIs. See the following link for the set of fields that are required in the OME TIFF file XML header. <https://docs.google.com/spreadsheets/d/1YnmdTAA0Z9MKN3OjR3Sca8pz-LNQll91wdQoRPSP6Q4/edit#gid=0> |
| <code>lab_processed\/images\/[^\/]*ome-tiff\.channels\.csv</code> || This file provides essential documentation pertaining to each channel of the accommpanying OME TIFF. The file should contain one row per OME TIFF channel. The required fields are detailed <https://docs.google.com/spreadsheets/d/1xEJSb0xn5C5fB3k62pj1CyHNybpt4-YtvUs5SUMS44o/edit#gid=0> |

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