Image registration

Image registration is the process of transforming different sets of data into one coordinate system. Registration is necessary in order to be able to compare or integrate the data obtained from different sensors/imaging modalities, at different times, from different view points, etc. . Registration can be based on correspondence established between the landmarks or feature points. Alternatively, some similarity/distance metric is established between the image intensity maps to navigate the registration process.

Synonyms
Image alignment

Template Matching and Slice Alignment--- ImageJ Plugins

Collection
Description

This ImageJ plugin contains two functions. The first one is the cvMatch_Template. It implements the template matching function from the OpenCV library. The second function Align_slices in stack utilized the previous matching function to do slice registration(alignment) based on a selected landmark. 

For more details, refer to the page of each component. 

cvMatch_Template

Align Slices in Stack

has function
Image registration

elastix

Collection
Description

Elastix is a toolbox for rigid and nonrigid registration of (medical) images.

Elastix is based on the ITK library, and provides additional algorithms for image registration. 

The software can be run as a single-line command, making it easy to include in larger scripts or workflows. The user needs to edit a configuration file that contains all relevant parameters for registration: transformation model, metric used to comapre images, optimization algorithm, mutliscale pyramidal representation of images...

Nowadays elastix is accompanied by SimpleElastix, making it available in other languages like C++, Python, Java, R, Ruby, C# and Lua.

has topic
Magnetic resonance imaging
Multimodal imaging
Computerized tomography
has function
Image registration
Affine registration
Deformable registration
elastix logo

Cancer Imaging Phenomics Toolkit (CaPTk)

Collection
Description

CaPTk is a software platform for analysis of radiographic cancer images, currently focusing on brain, breast, and lung cancer. CaPTk integrates advanced, validated tools performing various aspects of medical image analysis, that have been developed in the context of active clinical research studies and collaborations toward addressing real clinical needs. With emphasis given in its use as a very lightweight and efficient viewer, and with no prerequisites for substantial computational background, CaPTk aims to facilitate the swift translation of advanced computational algorithms into routine clinical quantification, analysis, decision making, and reporting workflow. Its long-term goal is providing widely used technology that leverages the value of advanced imaging analytics in cancer prediction, diagnosis and prognosis, as well as in better understanding the biological mechanisms of cancer development.

has topic
Bioimage informatics
has function
Image registration
Image analysis
Image segmentation
Object feature extraction
Image enhancement
Image visualisation
CaPTk

Spark Stitcher

Component
Description

Reconstruct big images from overlapping tiled images on a Spark cluster.

The code is based on the Stitching plugin for Fiji https://github.com/fiji/Stitching

has topic
Light microscopy
Light-sheet microscopy
has function
Image registration
Illumination correction
Image stitching
SparkStitching

Fiji CMTK GUI

Component
Description

Working version of a simple GUI frontend for CMTK image registration tools in Fiji

has topic
Imaging
Multimodal imaging
has function
Image registration
Affine registration
Deformable registration
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