sagittal_10um i

average, nissl, segmentations

Example cutout

# pip install numpy tifffile cloud-volume
import numpy as np
import tifffile
from cloudvolume import CloudVolume

vol = CloudVolume(
    "s3://open-neurodata/ara_2016/sagittal_10um/nissl_10um", mip=0, use_https=True
)

# load data into numpy array
cutout = vol[512:1024, 0:512, 512:528]

# save cutout as TIFF
tifffile.imwrite("data.tiff", data=np.transpose(cutout))

Documentation for cloud-volume located here

sagittal_25um

average, nissl, segmentations

sagittal 50um

average, nissl, segmentations, mesh

sagittal_100um

average, segmentations

A. I. F. B. Science. Allen Mouse Common Coordinate Framework ALLEN MOUSE COMMON COORDINATE FRAMEWORK AND REFERENCE ATLAS. Technical White Paper, 2017.

A. R. Jones, C. C. Overly, and S. M. Sunkin. The Allen Brain Atlas: 5 years and beyond. Nature Reviews Neuroscience, 2009.

E. Lein, M. Hawrylycz, N. Ao, M. Ayres, A. Bensinger, A. Bernard, A. Boe, M. Boguski, K. Brockway, E. Byrnes, and Others. Genome-wide atlas of gene expression in the adult mouse brain. Nature, 2006.