Difference between revisions of "Wiki help testing"
From MIPAV
m (→MIPAV Algorithms) |
m (→MIPAV Algorithms) |
||
| Line 184: | Line 184: | ||
**[[Interpolation methods used in MIPAV]] | **[[Interpolation methods used in MIPAV]] | ||
**[[Degrees of freedom]] | **[[Degrees of freedom]] | ||
| + | <div id="DtiAlgorithms"></div> | ||
**[[DTI Color Display]] | **[[DTI Color Display]] | ||
**[[DTI Pipeline | DTI Pipeline - under construction]] | **[[DTI Pipeline | DTI Pipeline - under construction]] | ||
| + | <div id="EdgeDetection"></div> | ||
**[[Edge Detection: Zero X Laplacian]] | **[[Edge Detection: Zero X Laplacian]] | ||
**[[Edge Detection: Zero X Non-Maximum Suppression]] | **[[Edge Detection: Zero X Non-Maximum Suppression]] | ||
| Line 191: | Line 193: | ||
**[[Extract Brain: Extract Brain Surface (BSE)]] | **[[Extract Brain: Extract Brain Surface (BSE)]] | ||
**[[Face Anonymizer (BET)]] | **[[Face Anonymizer (BET)]] | ||
| + | <div id="FilterAlgorithms"></div> | ||
**[[Fast Fourier Transformation (FFT)]] | **[[Fast Fourier Transformation (FFT)]] | ||
**[[Filters (Spatial): Adaptive Noise Reduction]] | **[[Filters (Spatial): Adaptive Noise Reduction]] | ||
| Line 211: | Line 214: | ||
**[[Filters (Wavelet): Thresholding]] | **[[Filters (Wavelet): Thresholding]] | ||
**[[Fuzzy C-Means: Multispectral and Single Channel Algorithms]] | **[[Fuzzy C-Means: Multispectral and Single Channel Algorithms]] | ||
| + | <div id="HistogramAlgorithms"></div> | ||
**[[Histogram Equalization: Regional Adaptive]] | **[[Histogram Equalization: Regional Adaptive]] | ||
**[[Histogram Equalization: Neighborhood Adaptive]] | **[[Histogram Equalization: Neighborhood Adaptive]] | ||
| Line 219: | Line 223: | ||
**[[Extract Surface (Marching Cubes)]] | **[[Extract Surface (Marching Cubes)]] | ||
**[[Mask]] | **[[Mask]] | ||
| + | <div id="MicroscopyAlgorithms"></div> | ||
**[[Microscopy Colocalization Orthogonal Regression]] | **[[Microscopy Colocalization Orthogonal Regression]] | ||
**[[Microscopy: Fluorescence Resonance Energy Transfer (FRET)-Acceptor]] | **[[Microscopy: Fluorescence Resonance Energy Transfer (FRET)-Acceptor]] | ||
**[[Microscopy: FRAP (Fluorescence Recovery After Photobleaching)]] | **[[Microscopy: FRAP (Fluorescence Recovery After Photobleaching)]] | ||
**[[Microscopy: Blind Deconvolution]] | **[[Microscopy: Blind Deconvolution]] | ||
| + | <div id="TransformationAlgorithms"></div> | ||
**[[Midsagittal line alignment]] | **[[Midsagittal line alignment]] | ||
**[[Morphology]] | **[[Morphology]] | ||
| Line 231: | Line 237: | ||
**[[Threshold]] | **[[Threshold]] | ||
**[[Transform to power of 2]] | **[[Transform to power of 2]] | ||
| − | |||
<div id="RegistrationAlgorithms"></div> | <div id="RegistrationAlgorithms"></div> | ||
| − | |||
**[[B-Spline Automatic Registration]] | **[[B-Spline Automatic Registration]] | ||
***[[Detect folding]] | ***[[Detect folding]] | ||
Revision as of 13:26, 10 May 2012
Contents
Preface
Getting Started Quickly with MIPAV
- Introducing MIPAV
- Installing MIPAV
- Getting Started Quickly with MIPAV
- Starting MIPAV
- MIPAV main window
- Managing memory in MIPAV
- Allocating Memory in MIPAV
- Opening and loading image files
- MIPAV toolbars
- Displaying MIPAV Toolbars
- Displaying images
- Modifying image resolutions
MIPAV Basics
- Understanding Image Basics
- Working with DICOM Images
- Visualizing Images
- Displaying images using the default view
- Displaying images using the animate view
- Displaying images using the cine (movie) view
- Displaying images using the lightbox view
- Displaying images using the link to another image view
- Displaying images using the triplanar view
- Displaying images using the triplanar-dual view
- Displaying images using the surface plotter view
- Displaying images using the surface renderer view
- Displaying images using the volume shear view
- Displaying images using the volume renderer view
- Segmenting Images Using Contours and Masks
- Analyzing Images
- Changing Image Datasets Using MIPAV Utilities
- Standard tasks provided through commands on the Utilities menu
- Recording utilities usage with the history feature
- 4 D tools
- Adding image margins
- Copying images using the Clone command
- Converting image datasets to different data types
- Correcting image spacing
- Cropping images
- Masking (filling) images
- Flipping images
- Image Calculator
- Image Math
- Inverting the image
- Matching images
- Maximum Intensity Projection
- Adding noise to images
- Pad
- Quantify Mask
- Replacing pixel/voxel value in images
- Rotating images
- Slice tools
- Inserting slices into image datasets
- Subtract VOI Background
- Standard tasks provided through commands on the Utilities menu
- Using Scripts (Macros) in MIPAV
- Developing Plugin Programs
- Technical Support
MIPAV Algorithms
- Fast Fourier Transformation (FFT)
- Filters (Spatial): Adaptive Noise Reduction
- Filters (Frequency)
- Filters (Spatial): Adaptive Path Smooth
- Filters (Spatial) Anisotropic Diffusion
- Filters (Spatial): Coherence-Enhancing Diffusion
- Filters (Spatial): Gaussian Blur
- Filters (Spatial): Gradient Magnitude
- Filters (Spatial) Laplacian
- Filters (Spatial) Local Normalization
- Filters (Spatial): Mean
- Filters (Spatial): Median
- Filters (Spatial): Mode
- Filters (Spatial): Nonlinear Noise Reduction
- Filters (Spatial): Nonmaximum Suppression
- Filters (Spatial): Regularized Isotropic (Nonlinear) Diffusion
- Filters (Spatial): Slice Averaging
- Filters (Spatial): Unsharp Mask
- Filters (Wavelet): Thresholding
- Fuzzy C-Means: Multispectral and Single Channel Algorithms
Glossary
Appendices
Talairach
- Introduction
- Installing
- Mapping Brains in Talairach Space
- Task 1, Performing a semimanual transformation on datasets to the Talairach coordinate system
- Task 2, Applying Talairach VOIs
- Task 3, Segmenting the original image
- Task 4, Transforming Talairach image and Talairach VOIs-1 to the original image
- Task 5, Copying Talairach VOIs to segmented images
- Task 6, Calculating statistics on VOIs
- Viewing the Talairach grid on Talairach images
