As part of fMRI data analysis, the package provides a set of tools for addressing the two main issues involved in intra-subject fMRI data analysis: (1) the localization of cerebral regions that elicit evoked activity and (2) the estimation of activation dynamics also known as Hemodynamic Response Function (HRF) recovery. To tackle these two problems, implements the Joint Detection-Estimation framework (JDE) which recovers parcel-level HRFs and embeds an adaptive spatio-temporal regularization scheme of activation maps. With respect to the sole detection issue (1), the classical voxelwise GLM procedure is also available through , whereas Finite Impulse Response (FIR) and temporally regularized FIR models are concerned with HRF estimation (2) and are specifically implemented in . Several parcellation tools are also integrated such as spatial and functional clustering. Parcellations may be used for spatial averaging prior to FIR/RFIR analysis or to specify the spatial support of the HRF estimates in the JDE approach. These analysis procedures can be applied either to volume-based data sets or to data projected onto the cortical surface. For validation purpose, this package is shipped with artificial and real fMRI data sets, which are used in this paper to compare the outcome of the different available approaches. The artificial fMRI data generator is also described to illustrate how to simulate different activation configurations, HRF shapes or nuisance components. To cope with the high computational needs for inference, handles distributing computing by exploiting cluster units as well as multi-core machines. Finally, a dedicated viewer is presented, which handles n-dimensional images and provides suitable features to explore whole brain hemodynamics (time series, maps, ROI mask overlay).

International audienceStandard Bayesian analysis of event-related functional Magnetic Resonance Imaging (fMRI) data usually assumes that all delivered stimuli possibly generate a BOLD response everywhere in the brain although activation is likely to be induced by only some of them in specific brain areas. Criteria are not always available to select the relevant conditions or stimulus types (e.g. visual, auditory, etc.) prior to estimation and the unnecessary inclusion of the corresponding events may degrade the results. To face this issue, we propose within a Joint Detection Estimation (JDE) framework, a procedure that automatically selects the conditions according to the brain activity they elicit. It follows an improved activation detection that we illustrate on real data