Aims tutorial
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Aims tutorial
Table of Contents
1. Foreward
2. Basic command lines
AimsFileConvert: Performs file format and data conversion
AimsSubVolume: Carve a subvolume in the input volume
AimsThreshold: Threshold on data
AimsGraphMesh: Performs graph storage conversion and sub-buckets meshing. This command is an improved version of AimsGraphConvert
AimsRoiFeatures: Compute scalar features (mean, volume ...) from regions of interest.
3. Conversion
AimsDiffusionBundleToRoi: conversion from bundles.bundles to ROI graph
AimsGraphConvert: conversion from label image to ROI graph
Table of format conversions
4. Calculation of images
AimsLinearComb: sum 2 activation maps
5. Handling meshes
Creation of a cube mesh from a point list
AimsZCat: concatenates volumes (along Z axis), meshes or buckets
6. Handling referentials and transformations
Coordinates systems in AIMS
AIMS and Anatomist
SPM
Changing between SPM and AIMS
Issues
Technical details
Compute the inverse transformation
Compose a transformation
7. Handling graphs
Copy a set of graph attributes to another graph
8. Rigid registration
AimsManualRegistration: manual registration between 2 volumes from 3 specific landmarks.
AimsMIRegister: registration based on mutual information.
9. Advanced level
Get a symmetrical ROI
10. Programming with AIMS in Python language
List of Figures
2.1.
Select label
2.2.
Viewing of non-meshed and meshed ROI
4.1.
Sum of 2 activation maps
6.1.
Referentials and normalization transformations
List of Tables
3.1.
Table of format conversions
9.1.
Summary to preserve the ROI volume