Dyer et al. (2016)

Learn More

Data

dyer16 Viz

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

vol = CloudVolume(
    "s3://open-neurodata/dyer/dyer16/image", mip=0, use_https=True
)

# load data into numpy array
cutout = vol[1024:1536, 1024:1536, 992:1008]

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

Documentation for cloud-volume located here

Tools

A Python 2 / 3 module that enables big-data neuroscience, as well as direct interfacing with NeuroData workflows and servers.

ndio

Mojo is an interactive proofreading tool for annotation of 3D EM data.

mojo

Tomographic reconstruction in Python

tomopy

Publications

E. L. Dyer, W. G. Roncal, H. L. Fernandes, D. Gürsoy, V. De Andrade, R. Vescovi, K. Fezzaa, X. Xiao, J. T. Vogelstein, C. Jacobsen, K. P. Körding, and N. Kasthuri. Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography. eNeuro, 2016.

To access this data, please view the guide.

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