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 💻 fMRIPrep (I): Running the Pipeline
  • Launch fMRIPrep for one subject
6 Jul 04 🎆 HOLIDAY! NO MEETING
  • Have a blast -- pun intended
7 Jul 11 🤓 fMRIPrep (II): QC & Outputs
  • Inspect HTML reports
  • Extract confounds
8 Jul 18 📈 GLM with Nilearn
  • First‑level (individual) stats
  • Build design matrix
  • Plot activation maps
9 Jul 25 🤖 Machine‑Learning / MVPA
  • Decoding with Nilearn + scikit‑learn
  • Train a classifier
  • Visualize weight maps
10 Aug 01 🏃 Hackathon Day
  • Project sprint & troubleshooting
  • Code, analyze, document
11 Aug 08 🔮 Show‑and‑Tell / Next Steps
  • Present projects
  • Plan Fall topics

Fall extension TBD.