Fig. 1: Resource data type and data products.

a, The nine data resources that are publicly available at https://www.microns-explorer.org/. b, Relationship between different data types. The primary in vivo data resource consists of 2P calcium images, 2P structural images, natural and parametric video stimuli used as visual input, and behavioural measurements. The secondary (derived) in vivo data resource includes the responses of approximately 75,909 pyramidal cells from cortical layer 2 to 5 segmented from the calcium videos, along with the pupil position and diameter extracted from the video of eye movements and locomotion measured on a single-axis treadmill. The primary anatomical data are composed of ex vivo serial section transmission EM images registered with the in vivo 2P structural stack. The volume includes a portion of VISp and three higher visual areas—VISlm, VISrl and VISal—for all cortical layers except extremes of layer 1. The secondary anatomical data is derived from the serial section EM image stack, and consists of semi-automated segmentation of cells, automated segmentation of nuclei, and automatically detected synapses. The tertiary anatomical data consists of assignments of the synapses to presynaptic and postsynaptic cells, triangle meshes for these segments, classification of nuclei as neuronal versus non-neuronal, and classification of neurons into excitatory and inhibitory cell classes. Secondary data for co-registration of in vivo and ex vivo images consists of manually chosen correspondence points between 2P structural images and EM images. Tertiary co-registration data are a transformation derived from these correspondence points. The transformation is then used to facilitate the matching of cell indices between the 2P calcium cell segmentation masks and the EM segmentation cells. MicroCT, micro-computed tomography.