BAMM (Brain Activation and Morphological Mapping)

BAMM is a software library for the statistical analysis of functional and structural (dual-echo) magnetic resonance images (MRI) of the human brain.

BAMM is freely available to academic users and can be downloaded from this site.

BAMM source code is written in C/C++ for computational speed. The statistical methods incorporated in the software are documented in peer-reviewed publications. On-line user guides and test datasets are also available supporting installation and execution of the software.

BAMM is a joint development of the Brain Mapping Unit, Department of Psychiatry, University of Cambridge and The Institute of Psychiatry, London, UK.

Acknowledgements: Funded by the Human Brain Project/Neuroinformatics, National Institute of Biomedical Imaging and Bioengineering and the National Instititute of Mental Health. the Wellcome Trust and GlaxoSmithKline plc.

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Overview

The BAMM library is made up from a number of stand-alone programs covering the flow-of-data in fMRI or structural MRI processing pipelines. Flow-of-control is by shell scripts which permit rapid and automated bulk-processing of large datasets. The programs within BAMM are:

FBAMM - functional MRI preprocessing, time-series analysis and inference by permutatiion:

• spatial and temporal correction for subject head movement and Gaussian spatial smoothing
• time-series analysis via the general linear model for block and event-related experimental designs and TR locked or unlocked data acqusition
• non-parametric (permutation) inference on voxel- and cluster-level statistics for individual brain activation mapping with auto-regressive pre-whitening or wavelet resampling

GBAMM - spatial registration into a standard space and inference of generic brain activation by permutation:

• affine transformation of activation maps to standard spaces (MNI, Talairach)
• median mapping of individual activation maps
• non-parametric (permutation)random effects inference on voxel- and cluster-level median statistics

XBAMM - linear modelling of between/within subjects effects:

• within-group correlations, between group differences, one-way, three-level ANOVA (omnibus and post-hoc tests) and two-way, two-level (2x2) ANOVA (main effects and interactions)
• indepedent or repeated measures
• non-parametric (permutation) inference on voxel- and cluster-level statistics

eXBAMM - any two-way factorial design:

• main effects and interactions for independent, repeated-measures or mixed experimental designs
• non-parametric (permutation) inference on voxel- and cluster-level statistics

SBAMM - structural (dual echo) MRI segmentation:

• automated parenchymal masking
• probabilistic tissue classification by windowed fuzzy clustering
• standard space (MNI, Talairach) mapping by affine transform

Click here for a list of publications using BAMM

Click here for a list of publications on BAMM methodology.

Support

Please see the "Information and Support" section on the top right hand corner.

Click here to go to the old BAMM (unmaintained) pages.