microstructure_annos_w_images_numpy.zip (77.25 MB)
A three-dimensional thalamocortical dataset for characterizing brain heterogeneity: Microstructure Annotations (NumPy)
dataset
posted on 2020-04-19, 23:48 authored by Judy PrasadJudy Prasad, Aishwarya BalwaniAishwarya Balwani, Erik JohnsonErik Johnson, Joseph MianoJoseph Miano, Vandana Sampathkumar, Vincent De Andrade, Kamel Fezzaa, Ming Du, Rafael Vescovi, Chris Jacobsen, Konrad Paul Kording, Doga Gursoy, William Gray Roncal, Narayanan Kasthuri, Eva DyerEva DyerIn this dataset, we provide a collection of images acquired from multiple brain regions that span an intact thalamocortical pathway (Agmon & Connors, 1991). Along with these images, we provide: (1) annotations of microstructures in the images that classify each pixel in the as either a: cell, myelinated axon, blood vessel, or background. All of these image volumes and annotations are stored as NumPy arrays. Pixels are labeled as follows: 0-> no label (background); 1-> vasculature; 2-> cell body; 3-> myelinated axon. Annotated images are provided for four regions of interest: Cortex, Striatum, TRN in thalamus, and the Zona Incerta (ZI).