UVA "Brainhack" 2025

Weekly coding/neuroimaging workshops hosted by the Morris and Connelly Labs at the University of Virginia.

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Weekly Schedule* 📅

* subject to change!

Week Date Lunch-&-Learn Hands-On Hacking
1 May 30 🔰 Intro
  • Discuss workshop goals
  • Set up Python/Jupyter
  • Bash 101
  • Verify Python env
  • Shell navigation & scripting
2 Jun 06 🧠 MRI Foundations
  • Basic MR physics
  • Brain mapping and BOLD fMRI
  • Explore NIfTIs in Python
  • Read and interpret DICOM/NIfTI Metadata
3 Jun 13 📎 BIDS & OpenNeuro
  • Data organization standards
  • Validate a BIDS dataset
  • Download sample data
4 Jun 20 💀 MR Preprocessing
  • Step-by-step, the what and why
  • Set up Docker/Apptainer for next week
5 Jun 27 💻 Preproc (cont.), Task Design & Analysis
  • Cover additional preprocessing steps (e.g., denoising)
  • Discuss GLM and fundamental stats for fMRI
  • Launch fMRIPrep on Rivanna
6 Jul 04 🎆 HOLIDAY! NO MEETING
  • Have a blast -- pun intended
7 Jul 11 🤓 More stats! Review & Group-level fMRI Analysis
  • Review weeks 1-5
  • Group-level stats
8 Jul 18 📈 Machine‑Learning
  • Stats review
  • MVPA
  • RSA
  • Discuss vectorization
  • Special considerations for ML in fMRI
9 Jul 25 🤖 BREAK -- NO MEETING
  • Taking a break :)
  • Train a classifier
  • Visualize weight maps
10 Aug 01 🏃 Structural MRI
  • Spin vs. gradient echo imaging
  • VBM
  • Freesurfer basics
  • DTI intro.
  • Conceptual overview/discussion
11 Aug 08 🔮 Diffusion Imaging
  • DTI & CSD
  • Special preproc considerations
12 Aug 15 BREAK -- NO MEETING
  • Taking a break :)
13 Aug 22 🥇 fNIRS
  • Halle Miller presenting!
  • fNIRS: basic mechanism and considerations

Fall extension TBD.