Introduction to Statistics Fred Hamprecht Multidimensional Image Processing

An Invitation to Image Analysis and Pattern Recognition

Detecting individual body parts improves mouse behavior classification

We experiment with interactive machine learning for mouse behavior classification, following the pioneering work JAABA [1]. Here, we describe a simple image processing pipeline that allows extracting individual body parts from single mouse top view video. Our experiments show that behavior classification accuracy increases substantially when transitioning from wholebody descriptors to features ...

Multivariate Watershed Segmentation of Compositional Data

Watershed segmentation of spectral images is typically achieved by first transforming the high-dimensional input data into a scalar boundary indicator map which is used to derive the watersheds. We propose to combine a Random Forest classifier with the watershed transform and introduce three novel methods to obtain scalar boundary indicator maps from class probability maps. We further introduce...

Segmentation of SBFSEM Volume Data of Neural Tissue by Hierarchical Classification

Three-dimensional electron-microscopic image stacks with almost isotropic resolution allow, for the first time, to determine the complete connection matrix of parts of the brain. In spite of major advances in staining, correct segmentation of these stacks remains challenging, because very few local mistakes can lead to severe global errors. We propose a hierarchical segmentation procedure based...

Geometric Analysis of 3D Electron Microscopy Data

We present a complete pipeline for the segmentation and analysis of 3-dimensional electron microscopy data. Considerable algorithmic optimizations and parallelization have been applied to make the system applicable to data as large as 8 gigavoxels. Discrete geometry plays a prominent role at several processing stages (initial watershed segmentation, cell complex representation, reduction of ove...