PyMVPA¶

PyMVPA is a Python package that provides a comprehensive environment for the statistical learning analysis of neuroscientific or psychophysical data. Although originally started by myself, it could only grow into what it is now after Yaroslav O. Halchenko had joined the project. We are fortunate to have a number of people contributing to the project. More recently, even users started publishing articles on analyses done with PyMVPA.

PyNIfTI -> NiBabel¶

In 2006, I wrote PyNIfTI, a free software Python module to access the NIfTI file format from within Python. Since then the source code has been downloaded several thousand times. Since April 2009, I am working with Matthew Brett on its successor: NiBabel. This new project supports a lot more file formats than PyNIfTI.

NeuroDebian¶

I am maintaining a number of packages (up-to-date package list) for the Debian project. In particular, I am trying to make software available in Debian that is essential for psychological, or neuroscience research. To address the specific needs of this audience Yaroslav O. Halchenko and I started NeuroDebian. This is a platform that acts as a staging area for such packages on their way into Debian. That way can sometimes be quiet long, due to complicated licenses and other technicalities. NeuroDebian tries to make software accessible to neuroscientists, even if a particular package does not (yet) meet all of Debian’s standard, and tries to offer scientists with the possibility to have a stable operating system (maybe even Ubuntu) and nevertheless up-to-date research tools.

Articles¶

Conference Proceedings¶

Miscellaneous¶

Ph.D. Theses¶

Conference Contributions¶

Lohmann, G., Tuerke, E., Reimer, E., Proeger, T., Hellrung, L., Goldhahn, D., Mueller, K., Hanke, M., Margulies, D., Villringer, A. & Turner, R. (2011). Lipsia 2.0 – a software package for analyzing MRI/fMRI/rs-fMRI data. Poster submitted for presentation at the 17th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada.

Hanke, M., Halchenko, Y. O., & Haxby, J. V. (2011). NeuroDebian: versatile platform for brain imaging research. Poster submitted for presentation at the 17th Annual Meeting of the Organization for Human Brain Mapping, Quebec City, Canada.

Fogelson, S. V., Kohler, P. J., Hanke, M., Halchenko, Y. O., Haxby, J. V., Granger, R. H. & Tse, P. U. (2011). STMVPA: Spatiotemporal multivariate pattern analysis permits fine- grained visual categorization. Poster to be presented at the annual meeting of the Vision Sciences Society, Naples, Florida, USA.

Baumgartner, F., Hanke, M., Geringswald, F., Speck, O. & Pollmann, S. (2011). Representation of visual feature conjunctions in the superior parietal lobule. Poster to be presented at the annual meeting of the Vision Sciences Society, Naples, Florida, USA.

Hanke, M., Halchenko, Y. O., & Haxby, J. V. (2011). Unsupervised brain parcellation from functional neuroimaging data. Poster to be presented at the annual meeting of the Cognitive Neuroscience Society, San Francisco, USA.

Halchenko, Y. O., Hanke, M., Haxby, J. V., Pollmann, S. & Raizada, R. D. (2010). Having trouble getting your Nature paper? Maybe you are not using the right tools? Poster presented at the annual meeting of the Society for Neuroscience, San Diego, USA.

Hanke, M., Halchenko, Y. O. (2010). Debian: The ultimate platform for neuroimaging research. Talk given at DebConf10, New York City, USA. [video: low resolution, high resolution]

Hanke, M., Halchenko, Y. O., & Olivetti, E. (2010). PyMVPA 0.5: A Major Update Of The Comprehensive Framework For Statistical Learning Analysis Of Neural Data. Poster presented at the workshop “Concepts, Actions, and Objects: Functional and Neural Perspectives”, Rovereto, Italy.

Halchenko, Y. O., Hanke, M, Haxby, J. V., Hanson, S. J. & Herrmann, C. (2010). Neural activity localization by predictive mapping between imaging modalities. Poster presented at the annual meeting of the Cognitive Neuroscience Society, Montréal, Canada.

Hanke, M., Halchenko, Y. O., Haxby, J. V. & Pollmann, S. (2010). Improving efficiency in cognitive neuroscience research with NeuroDebian. Poster presented at the annual meeting of the Cognitive Neuroscience Society, Montréal, Canada.

Hanke, M. (2009). An Introduction into fMRI data analysis with (Py)MVPA. Talk given at the ISMRM workshop: fMRI Advanced Issues and Processing Software, Annual Meeting of the International Society for Magnetic Resonance in Medicine, Honolulu, USA, April 2009.

Hanke, M., Halchenko, Y. O., Sederberg, P. B., Hanson, S. J., Haxby, J. V. & Pollmann, S. (2008). PyMVPA: A Python toolbox for machine-learning based data analysis. Poster presented at the annual meeting of the Society for Neuroscience, Washington, USA.

Hanke, M., Halchenko, Y. O., Sederberg, P. B., Hanson, S. J., Haxby, J. V. & Pollmann, S. (2008). PyMVPA: A Python toolbox for classifier-based analysis. Poster presented at the annual meeting of the German Society for Psychophysiology and its Application, Magdeburg, Germany. [Winner of the poster prize of the German Society of Psychophysiology and its Application]

Hanke, M. & Pollmann, S. (2006). Classification of dimension-change-related brain activation patterns with neural networks. Talk given at the “Tagung experimentell arbeitender Psychologen”, TeAP, Mainz, Germany.

Lukas, J. & Hanke, M. (2005). Reversed phi with random dot cinematograms under luminance and color contrast reversal. Poster presented at the European Conference on Visual Perception, A Coruña, Spain.

Hanke, M. & Lukas, J. (2003). Die Wahrnehmung der Bewegungsrichtung beim binokularen Tiefensehen: Zum Einfluss von Disparitatsänderung und monokularer Bildgeschwindigkeit. In H.H. Bülthoff, K.R. Gegenfurtner, H.A. Mallot, R. Ulrich., F.A. Wichmann (Eds), Beiträge zur 6. Tübinger Wahrnehmungskonferenz (p. 94). Knirsch: Kirchentellinsfurt.

Lukas, J. & Hanke, M. (2002). Bewegungswahrnehmung bei Reizdarbietung mit dynamischen Random-dot- Stereogrammen. In M. Baumann, A. Keinath & J.F. Krems (Eds.), Experimentelle Psychologie (p. 163). Regensburg: Roderer.