MATHEON F10: Image and signal processing in the biomedical sciences

Matheon - F10: Image and signal processing in the biomedical sciences: diffusion weighted imaging - modeling and beyond

Package "fmri" for R

The R-package "fmri" provides functions for analyzing single run fmri data with structure adaptive smoothing procedure. This includes I/O function for ANALYZE, AFNI, or DICOM files, linear modelling with hemodynamic response functions, signal detection using Random Field Theory.

References: K. Tabelow, J. Polzehl, H.U. Voss, and V. Spokoiny. Analyzing fMRI experiments with structural adaptive smoothing procedures., NeuroImage 33(1), 55-62 (2006).
J. Polzehl, K. Tabelow. Structural adaptive segmentation of statistical parametric mapping WIAS-Preprint No. 1484 (2010).

Documentation: J. Polzehl, K. Tabelow. Analyzing fMRI experiments with the fmri package in R. Version 1.0 - A users guide. WIAS-Technical Report No. 10 (2006), or J. Polzehl, K. Tabelow. fmri: A package for analyzing fmri data, RNews 7(2) 13-17 (2007).

Download: CRAN, which may contain a newer version, or fmri_1.4-0.tar.gz, or fmri_1.4-0.zip

Package "adimpro" for R

This packages provides functions for structure adaptive smoothing of digital images. This includes I/O functions for several image formats (including RAW), which relies on ImageMagick, image analysis and processing tools.

Reference, including documentation: J. Polzehl, K. Tabelow. Adaptive smoothing of digital images: The R package adimpro., Journal of Statistical Software 19(1), (2007).

Download: CRAN, which may contain a newer version, or adimpro_0.7.3.tar.gz, or adimpro_0.7.3.zip

Package "dti" for R

This package provides a structure adaptive smoothing procedure for Diffusion Tensor Imaging (DTI).

Reference: K. Tabelow, J. Polzehl, V. Spokoiny, and H.U. Voss. Diffusion Tensor Imaging: Structural adaptive smoothing, NeuroImage 39(4), 1763-1773 (2008).
J. Polzehl, K. Tabelow. Structural adaptive smoothing in diffusion tensor imaging: The R package dti., Journal of Statistical Software 31, (2009).

Download: CRAN, which may contain a newer version, or dti_0.9-0.tar.gz, or dti_0.9-0.zip

Adaptive Weights Smoothing in AMIRA™

We provide an adaptive weights smoothing function for AMIRA™. It is included in the ZIB-release (see there).

Adaptive Smoothing in SPM2

We have developed a toolbox for structural adaptive smoothing for SPM2 which implements the structure adaptive smoothing procedure for single subject fMRI data. Go to the home of this project for detailed information and download.