NeuroConTextVision

NeuroConText with Rich Image Representation using pre-trained foundation models (FM)

BrainIAC: https://github.com/AIM-KannLab/BrainIAC
SwinBrain: https://github.com/MAI-Lab-West-China-Hospital/SwinBrain
SegVol: (https://github.com/BAAI-DCAI/SegVol)

Setup

1. Clone the repository:

git clone https://github.com/ghayem/NeuroConTextVision.git
cd NeuroConTextVision

2. Set up environment with UV:

# Install UV if not already installed
curl -LsSf https://astral-sh.uv.install.sh | sh

# Sync the environment
uv sync

3. Add your KDE NIfTI files in:

data/kde_samples/

Files must be named like: pmid_<PMID>.nii.gz.

---

Embeddings Extraction

• Docs: See brainiac/README.md
• Dataset: here

Both pipelines save embeddings progressively; partial results are preserved in case of interruption.