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Department of Psychology

 Overview

EEG Cap
© Enya Weidner

Neuro-Imaging Consultation

Brain Visualisation

Content of Consultation:

Target Group:

  • Students
  • Doctoral candidates
  • Post-Docs
  • Who have questions concerning the planing, inquiry and analysis of imaging studies

Focus:

  • The emphasis lies on MRI-Studies; if needed, questions regarding other areas of neuroscience may also be invoked

Scope:
Structural MRI:

  • Volumetrics
  • Volumetric Analysis (SPM12, CAT12)
  • Analysis of Fiber Tracts (DTI)
  • Analysis of the Cortical Surface (FreeSurfer)
  • Tract-Based Statistics (TBSS, Tracula)

Functional MRI:

  • Task-related hypotheses (task fMRI)
  • Network-related hypotheses (resitng-state fMRI)
    • Analysis using Matlab/SPM12, Freesurfer or Python/NiLearn
    • Assistance with:
      • Visualisation of imaging data (Mircron, MricroGL, FreeView, Papaya) 
      • Anatomical and functional interpretation (Brain Atlases like the Harvard-Oxford Atlas and Online-Meta-Analyses like NeuroSynth.org)

Support for:
Planing and construction of experiments, including: 

  • Creation and preparation of stimuli
  • Choosing a study design
  • Programming and synchronising experiments 

Additional Consultation Topics:

  • Machine Learning
  • Pattern Recognition Methods (SciKit-Learn)
  • Data Visualisation (Matplotlib, Seaborn)
  • Efficient usage of online databases (NeuroVault.org, OpenNeuro.org)

Office Hours:

As agreed upon

Contact:

martin.wegrzyn@uni-bielefeld.de

MRI Analysis:

SPM12: https://www.fil.ion.ucl.ac.uk/spm/software/spm12/

CAT12: http://www.neuro.uni-jena.de/cat/

FreeSurfer: https://surfer.nmr.mgh.harvard.edu/

TBSS: https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/TBSS/UserGuide

Tracula: https://surfer.nmr.mgh.harvard.edu/fswiki/Tracula

NiLearn: http://nilearn.github.io/

Scikit-Learn: http://scikit-learn.org/stable/

Mricron: https://www.nitrc.org/projects/mricron

MricroGL: https://www.mccauslandcenter.sc.edu/mricrogl/home

Papaya: http://ric.uthscsa.edu/mango/papaya.html

FreeView: https://surfer.nmr.mgh.harvard.edu/fswiki/FreeviewGuide/

Pandas: http://pandas.pydata.org/

Matplotlib: https://matplotlib.org/

Seaborn: http://seaborn.pydata.org/index.html

PsychoPy: http://www.psychopy.org/

NeuroSynth: http://www.neurosynth.org/

NeuroVault: https://neurovault.org/

OpenNeuro: https://openneuro.org/

Brain Atlases: https://scalablebrainatlas.incf.org/

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