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Finding prevalence of transcripts in specific regions
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0
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36
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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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3095
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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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13192
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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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41
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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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315
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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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47
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August 11, 2025
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Entorhinal stereotactic coordinate mismatch
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3
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85
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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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90
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April 16, 2025
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Allen Human Reference Atlas - 3D, 2020 (new!)
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19
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14629
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January 23, 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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61
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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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351
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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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50061
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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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96
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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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196
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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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420
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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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769
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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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6896
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September 26, 2022
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CCFv3 annotation: wrong IDs
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4
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1418
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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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2418
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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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871
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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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542
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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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480
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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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485
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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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1029
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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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710
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June 2, 2021
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CCFv3 Highlights: Getting Started
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1
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2235
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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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3811
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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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878
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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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708
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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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414
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December 21, 2020
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