Randlett et al. (2015)

ZBrain. Light microscopy data

Data

ZBrain Viz

138 channels, atlas and mesh

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

vol = CloudVolume(
    "s3://zbrain/ZBrain/Anti_5HT_MeanOf40", mip=0, use_https=True
)

# load data into numpy array
cutout = vol[512:1024, 0:512, 16:32]

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

Documentation for cloud-volume located here

ZBrain (quick view) Viz

Selected channels, atlas and mesh

Publications

O. Randlett, C. L. Wee, E. A. Naumann, O. Nnaemeka, D. Schoppik, J. E. Fitzgerald, R. Portugues, A. M. Lacoste, C. Riegler, F. Engert, and A. F. Schier. Whole-brain activity mapping onto a zebrafish brain atlas. Nature Methods, 2015.

To access this data, please view the guide.

Data on this site are licensed under ODC-By v1.0 license.