Some interesting examples comes from the Galaxy project [ 13], which is a comprehensive open source toolbox meant to offer an interactive web based platform for running and tracing the manifold bioinformatics analyses useful for genomics, also permitting workflows on varied data types, NGS libraries included.
For identifying individuals that possibly have contact with each other, we utilize a validated [ 36, 37] open source toolbox called MATSim [ 18], which was developed for implementing large-scale agent-based transport simulations.
Additional analyses on sensor space data were performed using the Fieldtrip open source toolbox (http://www.ru.nl/fcdonders/fieldtrip/). The power spectral values for the frequency bands mentioned previously were estimated by multi-taper FFT for the electrodes overlying the auditory cortex (T7 and T8) and correlated to subjective VAS loudness scores.
All offline data processing was performed using MATLAB R2008 (The MathWorks, Inc., Natic, MA) and FieldTrip, an open source Matlab toolbox for the analysis of EEG and MEG data that has been developed at our centre (http://www.ru.nl/neuroimaging/fieldtrip/).
The data were further analyzed with EEGLAB, an open source Matlab toolbox.
To remove eye artifacts, we used the ICA filtering technique implemented in EEGLAB, an open source MATLAB toolbox (Delorme and Makeig 2004).
Signal processing was performed using the BioSig open source toolboxes (Vidaurre et al., 2011) in MATLAB (Mathworks Inc., USA).
The off-line paradigm and subsequent signal processing was performed using rtsBCI (Scherer, 2005) and the BioSig Open source toolboxes (Vidaurre et al., 2011).
An open source MATLAB toolbox and a stand-alone compiled Graphical User Interface (GUI) application were developed as an exploratory tool (see Section Availability and requirements).
To automate masking of patterns we used an open source Matlab GP toolbox [17].
