Weiler et al. (2014)
The lab of Stephen J Smith has been developing array tomography technology for nearly a decade (Micheva et al., 2007). This technology is unique in its ability to measure many proteins (20 or more) in biological tissue samples with superresolution precision. In this dataset, we are using array tomography to uncover molecular signatures synaptic diversity (O'Rourke et al., 2012), which is fundamental to neural circuit design and function. Images generously donated by Nick Weiler.Learn More
# pip install numpy tifffile cloud-volume import numpy as np import tifffile from cloudvolume import CloudVolume vol = CloudVolume( "s3://open-neurodata/weiler14/Ex10R55/Arc_5", mip=0, use_https=True ) # load data into numpy array cutout = vol[1536:2048, 1536:2048, 32:48] # save cutout as TIFF tifffile.imwrite("data.tiff", data=np.transpose(cutout))
Documentation for cloud-volume located here
N. C. Weiler, F. Collman, J. T. Vogelstein, R. Burns, and S. J. Smith. Synaptic molecular imaging in spared and deprived columns of mouse barrel cortex with array tomography. Scientific Data, 2014.