A three-dimensional thalamocortical dataset for characterizing brain heterogeneity: Microstructure Annotations (NumPy)

In 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).