1 - 18 of 18 results

Nipype / Neuroimaging in Python: Pipelines and Interfaces

Interfaces with existing software for analysis of neuroimaging data and comparative development of algorithms. Nipype is an open-source, community-developed, Python-based software package that consists of three components: (1) interfaces to external tools providing a unified way for setting inputs, executing, and retrieving outputs; (2) a workflow engine for creating analysis pipelines; and (3) plug-ins that execute workflows either locally or in a distributed processing environment.

PyMVPA / MultiVariate Pattern Analysis in Python

Applies classifier-based analysis techniques to fMRI datasets. PyMVPA makes use of Python's ability to access libraries written in a large variety of programming languages and computing environments to interface with the wealth of existing machine-learning packages. It follows a general approach by providing a collection of common algorithms and processing steps that can be combined with great flexibility. The software code is tested to be portable across multiple platforms, and limiting set of essential external dependencies in turn has proven to be portable.

TDT / The decoding toolbox

Represents a user-friendly, powerful and flexible package for multivariate analysis of functional brain imaging data. TDT allows running fast whole-brain analyses, region-of-interest analyses and searchlight analyses, using machine learning classifiers, pattern correlation analysis, or representational similarity analysis. It offers automatic creation and visualization of diverse cross-validation schemes, feature scaling, nested parameter selection, a variety of feature selection methods, multiclass capabilities, and pattern reconstruction from classifier weights.

FNC / Functional Network Connectivity

Allows users to investigate relationships between brain networks. The FNC Toolbox is a Matlab software that extends the analysis run by the GIFT toolbox. The application is able to compute Granger Causality or the highest correlated lag between components from a GIFT output file. It was tested for the identification of pairs of independent components that are showing changes in temporal correlation between healthy controls and schizophrenic patients.

4D FFT Toolbox

Characterizing the role in overall brain activation of spatially scaled periodic patterns with given temporal recurrence rates. 4D FFT Toolbox is a Matlab software that focuses on the computation of is the spatiotemporal spectral profile (STSP). The application is able to distinguish populations of interest among large balanced multi-site resting functional magnetic resonance imaging (fMRI) dataset. It was tested on a dataset of fMRI data including schizophrenia patients and healthy controls.

SCKS / Square-root Cubature Kalman Filter

Evaluates states, input and parameters of stochastic continuous-discrete state-space models. SCKS is a toolbox that consists of two main algorithms: square-root Cubature Kalman Filter and square-root Rauch-Tang-Striebel smoother (SCKF-SCKS). The application can be applied to the inversion of any nonlinear continuous dynamic model that is formulated with stochastic differential equation and is especially designed for the assessment of the underlying neuronal signal.


Infers functional connectivity by analyzing the peak trains of spiking neuronal signals. ToolConnect implements correlation and information theory based core algorithms. It contains several modules in the windows form embodiment and allows the user to easily manipulate and analyze data, while providing computational efficiency and accuracy. This tool is able to return both numerical and graphical results. It has been designed to be adapted, modified and extended by the interested researchers.