Motivation Large-scale neuronal morphologies are essential to neuronal typing, connectivity
characterization and brain modeling. It is widely accepted that automation is critical to the …

" In this chapter, we introduce some of the very basics that are used throughout the book.
First, we give the definition of a topological space and related notions of open and closed …

Imaging roots of growing plants in a non-invasive and affordable fashion has been a long-
standing problem in image-assisted plant breeding and phenotyping. One of the most …

Neuron tracing, alternately referred to as neuron reconstruction, is the procedure for
extracting the digital representation of the three-dimensional neuronal morphology from …

We consider the problem of inferring simplified topological substructures--which we term
backbones--in metric and non-metric graphs. Intuitively, these are subgraphs with'few'nodes …

Topological persistence provides an avenue to study a function f: X→ R on a space X. Reeb
graphs provide another avenue to do the same; although the summarizations produced by …