brain-region-signal-statistics-calculalor 0.0.2

Compute brain region signal statistics for 3D brain volume

Welcome!

This is a repository for computing region signal statistics for 3D brain volume.

Instructions

To use the brain-region-signal-statistics-calculalor library, either clone this repository and install the requirements listed in setup.py or install directly with pip.

Install package

pip install brain-region-signal-statistics-calculalor

The script should take four inputs:

• an image volume to summarize (e.g. data/signal.npz)
• an image volume that maps voxels to brain region IDs (e.g. data/annotation.npz)
• a CSV describing brain regions (e.g. data/structures.csv)
• an output CSV file name (e.g. data/statistics.csv)

Testing

To compute the statistics for the given signal image, run:

./run.py --annotation_volume_path data/annotation.npz --signal_volume_path data/signal.npz --structures_df_path data/structures.csv --statistics_df_path data/statistics.csv

Contact

Di Wang ([e-mail])