Documentation 0.16.0. > Examples

Examples

Examples

A note about the examples

Contents

Examples

Quick Start

Preprocessing

Gradients & Spheres

Gradients and Spheres

Brain Extraction

Brain segmentation with median_otsu

Basic SNR estimation

SNR estimation for Diffusion-Weighted Images

Denoising

Reslice

Reslice diffusion datasets

Reconstruction

Constrained Spherical Deconvolution

Reconstruction with Constrained Spherical Deconvolution

Fiber Orientation Estimated using Continuous Axially Symmetric Tensors

Crossing invariant fiber response function with FORECAST model

Simple Harmonic Oscillator based Reconstruction and Estimation

Mean Apparent Propagator (MAP)-MRI

Continuous and analytical diffusion signal modelling with MAPMRI

Studying diffusion time-dependence using qt-dMRI

Estimating diffusion time dependent q-space indices using qt-dMRI

Diffusion Tensor Imaging

Diffusion Kurtosis Imaging

Reconstruction of the diffusion signal with the kurtosis tensor model

Q-Ball Constant Solid Angle

Reconstruct with Constant Solid Angle (Q-Ball)

Diffusion Spectrum Imaging

Generalized Q-Sampling Imaging

Reconstruct with Generalized Q-Sampling Imaging

DSI with Deconvolution

DSI Deconvolution vs DSI

Sparse Fascicle Model

Reconstruction with the Sparse Fascicle Model

Intravoxel incoherent motion (IVIM)

Intravoxel incoherent motion

Statistical evaluation

K-fold cross-validation for model comparison

Contextual enhancement

Fiber tracking

Fiber tracking evaluation

Linear fascicle evaluation (LiFE)

Streamline analysis and connectivity

Registration

Image-based Registration

Streamline-based Registration

Direct Bundle Registration

Segmentation

Streamline Clustering

Brain Segmentation

Brain segmentation with median_otsu

Tissue Classification

Tissue Classification of a T1-weighted Structural Image

Bundle Extraction

Automatic Fiber Bundle Extraction with RecoBundles

Simulations

Multiprocessing

File Formats

Read/Write streamline files

Visualization

Workflows