Software

Open source

Open-source research tools, with their code and releases.

HVR — Hippocampal-to-Ventricle Ratio

Head-size-independent neurodegeneration biomarker

Deep-learning pipeline that segments hippocampus and ventricles from T1 MRI to compute a head-size-independent neurodegeneration biomarker.
Outperforms hippocampal volume alone for tracking cognitive decline in Alzheimer's and Parkinson's cohorts.
Published in Human Brain Mapping (2025); primary biomarker in a submitted CIHR grant.

GitHub · Docker Hub · Paper

Qrater

Collaborative MRI quality control for research teams

Collaborative web tool for MRI quality control: shared dashboard, rater assignments, scan history — built for teams that have outgrown spreadsheet-based QC.
Cuts per-scan QC time 2–10× compared to legacy workflows.
Published in Aperture Neuro (2024).

GitHub · Docker Hub · Paper

Hackathons

mriqception — MRI quality-control toolkit. Neurohackademy 2019, University of Washington. github.com/elizabethbeard/mriqception
FANI-Pack (Find All New ICDs Package) — ICD-9→10 conversion function for the R package icd. Women-led BioData Science Hackathon, NCBI/NIH, 2019. github.com/NCBI-Hackathons/Design-of-ICD-9-to-10-…