Optimized for SmartSPIM

SmartAnalytics is a powerful workstation built to handle terabyte-size 3D image datasets from our SmartSPIM light sheet microscope, giving individual labs in-house control of analysis and extensive computational power without waiting for computing core resources or sending data to black-box analysis services.

Publication-ready results

Generate accurate cell counts and fluorescence intensity outputs for highly granular brain regions, enabling multi-sample statistical significance testing. Export heat maps and bar graphs directly from the software, ready to be embedded into your next grant submission, presentation, or publication.

Easily align to the Allen Brain Atlas

SmartAnalytics is designed for minimally-experienced users: you don’t have to be a
computer science or expert neuroanatomist to produce a well-aligned dataset. Accurate alignment to the Allen Brain Atlas allows for precise cell counts and fluorescence localization measurements.

Adaptable detection models

Neural activity: Detection and mapping of cFOS+ cells in a whole brain gives insight into brain regional activity levels unaffected by selection bias.

Neurological disease markers: Cell detection models for astrocytes (GFAP) and microglia (IBA1), and segmentation analyses for β-amyloid deposits (senile plaques) and α-synuclein aggregates (Lewy Bodies) provide a detailed measure of disease progression and expression and neuroinflammatory response.

Endogenous fluorescence and more: SmartAnalytics identifies and quantifies many types of cells, including fluorescently-tagged cells and neurons immunolabeled for NeuN, TH, PV, and more.

Further reading