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Color duplicates in reference atlas images
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0
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16
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October 12, 2025
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Human Brain Atlas Mesh Files
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4
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3038
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October 3, 2025
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Mouse brain reference atlases & mapping your own data
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8
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13060
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September 25, 2025
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Possible Error In Atlas Generation
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2
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37
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September 22, 2025
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Hello everyone, I am trying to map my entire mouse brain MERFISH sections of P4 & P7 to the Allen Brain Atlas and annotate the brain regions. Could anyone clarify the exact input data required for this process?
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8
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273
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August 13, 2025
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Estimate location of brain sagittal or coronal slice
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1
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121
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August 12, 2025
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Visualising gene enrichment results in the developing brain
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2
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30
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August 12, 2025
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Mouse reference atlas areas volume
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2
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279
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June 5, 2025
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Bregma standard?
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1
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139
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April 3, 2025
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Allen Human Reference Atlas - 3D, 2020 (new!)
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19
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14274
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January 23, 2025
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Allen Mouse CCF - accessing and using related data and tools
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2
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48535
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July 22, 2024
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How to map parcellation indices to anatomical ontology IDs in CCFv3 between the Allen Cell Atlas and Gene Expression Atlases?
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0
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140
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July 15, 2024
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Brain region and donor metadata for human snRNAseq 10x based cross area datasets
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0
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167
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April 4, 2024
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Accessing directory of SectionImage
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0
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105
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April 4, 2024
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Human Reference Atlas Right Hemisphere
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2
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637
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March 8, 2024
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Question about data in AGEA
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4
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286
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March 4, 2024
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Code to visualize neuropixel probe trajectories from the visual behaviour dataset?
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6
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429
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January 26, 2024
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Bregma-Lambda Distance in High Resolution Allen Brain Atlas: Mouse Brain
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0
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1059
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January 26, 2024
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Afferent/efferent projections Brain explorer2 issue
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0
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205
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November 21, 2023
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Differences in Hex Values for Brain Regions Across Different Sources
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0
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314
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June 14, 2023
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Uploading pretrained scvi model on the SEA-AD Reference to the Hugging Face scvi-hub
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2
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415
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May 18, 2023
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Structure ids from annotation atlas do not match the structure ids in the json graph (mouse brain)
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2
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996
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September 29, 2022
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CCFv3 annotation: wrong IDs
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4
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1394
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September 22, 2022
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Attempting to Download Substructures for Coronal P56 Mouse Atlas
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5
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2405
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August 20, 2022
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Allen Mouse CCF - gallery of tools and publications
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15
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6008
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August 15, 2021
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Sagittal section for P4 and P14 mouse brain
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1
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452
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July 10, 2021
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Doubts in the Annotation Workflow in Allen Brain CCFv3
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1
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647
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July 5, 2021
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Does CCFv3 include 3D atlas of AchE, NeuN, DAPI, SMI-99, and NF-160?
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1
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594
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June 24, 2021
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Assigning Allen Transcriptomic Taxonomy to External Dataset
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3
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679
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June 17, 2021
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Find ISH data related to specific atlas plate
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3
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620
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May 28, 2021
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