CCFMBIS is a computer-aided tool for 2-D brain image segmentation using an electrostatic charged fluid model. It allows researchers to perform 2-D image segmentation in brain MR image data.
The FFT library is used for the execution of discrete Fourier transforms in 1-D, 2-D and 3-D through the implementation of Fast Fourier Transform (FFT) algorithms.
Brain Parser software segments regions of interest based on a training set of data and generates 3D MRI volumes. The software comes pre-trained on a provided data set but can be retrained to work with your desired regions of interest.
The LONI Pipeline is a free workflow application primarily aimed at Neuroimaging Researchers. With the LONI Pipeline, users can create workflows that take advantage of all the greatest Neuroimaging tools available, quickly.
The LONI Provenance Editor is a self-contained, platform-independent application that automatically extracts the provenance information from an image header (such as a DICOM image) and generates a data provenance XML file with that information.
The ShapeTools library is a collection of Java classes that enable Java programmers to model and manipulate geometric shapes and associated data values. It simplifies the creation of application programs by providing a ready-made set of support routines.
The LONI ShapeViewer is a simple, portable geometry viewer that supports the file formats used by CCB researchers and provides their most commonly needed viewing functions. Since it is written in Java, it can run on a wide variety of computers. 
An interactive tool for stereotaxic brain data visualization. LOVE is a 3-D viewer that allows volumetric data display and manipulation of axial, sagittal and coronal views.
MLS is an algorithm and application for skull-stripping magnetic resonance.MRFSEG+GAMIXTURE is a collection of tools implementing a flexible voxel classification framework. The framework is based on a novel genetic algorithm based finite mixture model (GAMIXTURE) and a standard 3-D Markov random field (MRF) based on the iterative conditional modes (ICM) algorithm (MRFSEG).
The LONI Neuroimaging Provenance XSD is an XML schema Document for validating and describing .prov data provenance description files
REM registers N-D image pairs that may contain topological differences. It produces an output reconstructed image and both a geometric and intensity transformation as a N-D vector field.
This web resource provides an online framework for evaluating the results of skull-stripping algorithms. Users may browse the results produced by others, or they may download the test data, segment it with their own algorithm, and upload it to have it evaluated.A collection of applications based on the various ShapeTools libraries.
The Surface Warping protocol warps a collection of shapes to an atlas, using sets of sulcal contours to guide the warp. The atlas is computed from the contours provided by the user, and the resulting shapes will have anatomically homologous vertices.