Open Science #

Open source/free software #

• Expyriment
  An open-source and platform-independent lightweight Python library for designing and conducting timing-critical behavioural and neuroimaging experiments
  www.expyriment.org

  • Krause, F. & Lindemann, O. (2014). Expyriment: A Python library for cognitive and neuroscientific experiments. Behavior Research Methods, 46(2), 416-428. https://doi.org/10.3758/s13428-013-0390-6

• Scan Session Tool
  (f)MRI scan session documentation and data archiving
  fladd.github.io/ScanSessionTool

  • Krause, F. & Kogias, N. (2024). Scan Session Tool: (f)MRI scan session documentation and archiving. Journal of Open Source Software, 9(100), 6126, https://doi.org/10.21105/joss.06126

• IndNet
  Defining subject-specific brain networks by individualizing templates
  github.com/can-lab/IndNet

• Finish the job
  Running common preprocessing steps after fMRIprep
  github.com/can-lab/finish-the-job

• FawN
  FSL analysis with NiPype
  github.com/can-lab/fawn

• pseuDICOM
  Pseudonimize (f)MRI data in DICOM format
  github.com/can-lab/pseuDICOM

• BrainVoyager Tools
  An object-oriented approach to create, read and write common plain-text BrainVoyager input formats with Python
  github.com/fladd/brainvoyagertools

• Data Integrity Fingerprint (DIF)
  Reference Python implementation
  github.com/expyriment/dataintegrityfingerprint-python

• DataIntegrity
  A BitTorrent-compatible Data Integrity Fingerprint (DIF) proposal
  github.com/fladd/DataIntegrity

• StuffPages
  A quick way to create simple web pages using Markdown
  github.com/fladd/StuffPages

• RealTimeExportServer
  Export real-time pixel data from a Siemens MR scanner via TCP
  github.com/fladd/RealTimeExportServer

• DummyTrigger
  Send dummy MR triggers via serial port
  github.com/fladd/DummyTrigger

• CompareDirectories
  Binary compare two directories recursively
  github.com/fladd/CompareDirectories

Open data/code #

• Supplements "Predicting resilience from psychological and physiological daily-life measures"
  osf.io/8grzu/

• Supplements "Self-regulation of stress-related large-scale brain network balance using real-time fMRI Neurofeedback"
  (Krause, Kogias, Krentz, Lührs, Goebel & Hermans, 2021)
  osf.io/sh2ck

• Gradual real-time fMRI neurofeedback training of motor imagery in middle cerebral artery stroke patients
  (Mehler, Williams, Whittaker, Krause, Lührs, Turner & Linden, 2020)
  osf.io/y69jc

• Supplements "Active head motion reduction in Magnetic Resonance Imaging using tactile feedback"
  (Krause, Benjamins, Eck, Lührs, van Hoof & Goebel, 2019)
  osf.io/hrnfw

• Supplements "Interaction between Perceptual and Motor Magnitudes in Early Childhood"
  (Krause, Meyer, Bekkering, Hunnius & Lindemann, 2019)
  osf.io/xn8cm

Preregistrations #

• MeReL: Modelling and Predicting Resilience in Real Life (Cross-sectional) osf.io/mw7j9

• Predicting resilience from psychological and physiological daily life measures
  osf.io/24qrt

• Reward sensitivity in the lab and daily life: Associations with resilience over time
  osf.io/86v52

• Neural Mechanisms of Neurofeedback Reward Processing Public registration Updates
  osf.io/bzweg

• Gradual real-time fMRI neurofeedback training of motor imagery in middle cerebral artery stroke patients
  (Mehler, Williams, Whittaker, Krause, Lührs, Turner & Linden, 2020)
  osf.io/y69jc

Preprints #

• Comparative investigation of appraisal style measures in their predictive potential for stress resilience and implications for predictive modeling of resilience osf.io/preprints/psyarxiv/58ft9

• Predicting resilience from psychological and physiological daily-life measures
  osf.io/f28uv

• Changes in large-scale neural networks under stress are linked to affective reactivity to stress in real life
  biorxiv.org/content/10.1101/2023.03.28.534537v1

• A Comparison of fMRI Data-Derived and Physiological Data-Derived Methods for Physiological Noise Correction
  biorxiv.org/content/10.1101/2023.02.22.529506v1

• Getting stress-related disorders under control: The unique opportunity for neurofeedback-based therapy
  osf.io/vxnbk/

• Using wearable biosensors and ecological momentary assessments for the detection of prolonged stress in real life
  biorxiv.org/content/10.1101/2021.06.29.450360v3

• On implementing timing-accurate computer-based experiments
  psyarxiv.com/k5vd9/

• Self-regulation of stress-related large-scale brain network balance using real-time fMRI Neurofeedback
  (Krause, Kogias, Krentz, Lührs, Goebel & Hermans, 2021)
  biorxiv.org/content/10.1101/2021.04.12.439440v2

• Active head motion reduction in Magnetic Resonance Imaging using tactile feedback
  (Krause, Benjamins, Eck, Luehrs, van Hoof & Goebel, 2019)
  biorxiv.org/content/10.1101/595777v1

Other #

• Data Integrity Fingerprint (DIF)
  A proposal for a human-readable fingerprint of scientific datasets that allows verifying their integrity
  github.com/expyriment/dataintegrityfingerprint

• BVPython
  Documentation for using Python in BrainVoyager
  fladd.github.io/BVPython