functional magnetic resonance imaging (fmri) has become the most popular method for imaging of brain functions. currently, there is a large variety of software packages for the analysis of fmri data, each providing many features for users. since there is no single package that can provide all the necessary analyses for the fmri data, it is helpful to know the features of each software package. ...

Functional magnetic resonance imaging (fMRI) has become the most popular method for imaging of brain functions. Currently, there is a large variety of software packages for the analysis of fMRI data, each providing many features for users. Since there is no single package that can provide all the necessary analyses for the fMRI data, it is helpful to know the features of each software package. ...

The occurrence of collinearity in fMRI-based GLMs (general linear models) may reduce power or produce unreliable parameter estimates. It is commonly believed that orthogonalizing collinear regressors in the model will solve this problem, and some software packages apply automatic orthogonalization. However, the effects of orthogonalization on the interpretation of the resulting parameter estima...

The objectives of this study were to use computer-generated phantoms containing real subject motion to: (1) compare the sensitivity of four commonly used fMRI software packages and (2) compare the sensitivity of three statistical analysis strategies with respect to motion correction. The results suggest that all four packages perform similarly in fMRI statistical analysis with SPM2 having sligh...

Currently, there are many choices of software packages for the analysis of fMRI data, each offering many options. Since no one package can meet the needs of all fMRI laboratories, it is helpful to know what each package offers. Several software programs were evaluated for comparison of their documentation, ease of learning and use, referencing, data input steps required, types of statistical me...

Recently, Eklund et al. (1) analyzed clustering methods in standard fMRI packages: AFNI (which we maintain), FSL, and SPM. They claim that (i ) false-positive rates (FPRs) in traditional approaches are greatly inflated, questioning the validity of “countless published fMRI studies”; (ii ) nonparametric methods produce valid, but slightly conservative, FPRs; (iii ) a common flawed assumption is ...

The human brain is remarkably plastic. The brain changes dramatically across development, with ongoing functional development continuing well into the third decade of life and substantial changes occurring again in older age. Dynamic changes in brain function are thought to underlie the innumerable changes in cognition, emotion, and behavior that occur across development. The brain also changes...

T he article in this issue of the American Journal of Neuroradiol-ogy (AJNR) entitled " Simple fMRI Postprocessing Suffices for Normal Clinical Practice " 1 is an important contribution to the current blood oxygen level– dependent (BOLD) fMRI literature because it highlights an emerging trend in functional neuroimag-ing software development that will likely promote increasing clinical use of fM...

There is a recent increase in the use of multivariate analysis and pattern classification in prediction and real-time feedback of brain states from functional imaging signals and mapping of spatio-temporal patterns of brain activity. Here we present MANAS, a generalized software toolbox for performing online and offline classification of fMRI signals. MANAS has been developed using MATLAB, LIBS...

FSL (the FMRIB Software Library) is a comprehensive library of analysis tools for functional, structural and diffusion MRI brain imaging data, written mainly by members of the Analysis Group, FMRIB, Oxford. For this NeuroImage special issue on "20 years of fMRI" we have been asked to write about the history, developments and current status of FSL. We also include some descriptions of parts of F...