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Allen Human Reference Atlas - 3D, 2020 (new!)
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20
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14977
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December 12, 2025
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Finding prevalence of transcripts in specific regions
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0
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46
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October 9, 2025
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Human Brain Atlas Mesh Files
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4
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3133
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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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13306
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September 25, 2025
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Troubleshooting ccf_streamlines: bregma on the TOP view (CCFv3, 10 µm)
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3
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53
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September 5, 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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341
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August 13, 2025
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What's the difference between x_reconstructed and x_ccf
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1
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52
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August 11, 2025
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Entorhinal stereotactic coordinate mismatch
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3
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101
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May 7, 2025
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有什么好的方法，可以确定小鼠视觉皮层相对与小鼠的前囟的位置呢？
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1
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103
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April 16, 2025
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How to get a specimen stack space(volume) from an mouse ISH section dataset or get an actual coodinates of point alignment in reference space?
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1
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71
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November 1, 2024
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Mouse ABC with CCF Coordinates
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2
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366
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August 21, 2024
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Allen Mouse CCF - accessing and using related data and tools
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2
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50378
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July 22, 2024
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How MERFISH obtained x,y,z coordinates of each cell
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0
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106
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July 9, 2024
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ABC MERFISH cell coordinates magnitude is different from template image section resolution?
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1
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210
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March 4, 2024
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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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435
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May 18, 2023
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Projecting mouse connectivity to the cortical surface
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9
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784
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December 21, 2022
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How to switch between the 3 coordinate systems of Mouse Connectivity?
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6
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6993
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September 26, 2022
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CCFv3 annotation: wrong IDs
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4
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1450
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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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2445
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August 20, 2022
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Some questions about Mouse Brain Atlas in Brain Explorer 2
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1
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888
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June 21, 2022
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Voxel id in annotation file
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1
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556
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June 16, 2022
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Plotting the visual Neuropixel coordinates in CCF: problem with anterior-posterior alignment
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0
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485
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June 1, 2022
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Access individual axon lengths and their position
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0
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488
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April 27, 2022
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Neuropixels data - Electrode (X,Y,Z)
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4
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1050
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July 12, 2021
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Tracking mouse gaze on screen clarifications
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2
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717
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June 2, 2021
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CCFv3 Highlights: Getting Started
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1
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2249
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April 7, 2021
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CCFv3 Highlights: "Tilting at the cortex"
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3
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3860
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March 21, 2021
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CCFv3 Highlights: Transgene Expression Data
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0
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891
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March 9, 2021
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[Brainspan ISH] Atlas Image to Section Image
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1
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715
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February 26, 2021
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Data Analysis for cell detection at adult mouse
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2
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426
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December 21, 2020
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