qmri-cli 0.1.0

Command-line interface for qmri quantitative MRI analysis

qmri-cli

Command-line interface for qmri quantitative MRI analysis.

Installation

pip install qmri-cli

Quick Start

# Fit ADC map
qmri adc fit dwi.nii.gz --bval dwi.bval --output adc.nii.gz

# With brain mask and quality threshold
qmri adc fit dwi.nii.gz \
    --bval dwi.bval \
    --mask brain.nii.gz \
    --r2-threshold 0.8 \
    --output adc.nii.gz

# T1 mapping from inversion recovery
qmri t1 fit-ir t1w.nii.gz \
    --inversion-times 0.1,0.5,1.0,2.0 \
    --output t1_map.nii.gz

# Get help
qmri --help
qmri adc --help

Commands

Command	Description
qmri adc fit	ADC fitting from DWI
qmri adc calibrate	B-value calibration
qmri t1 fit-ir	T1 mapping (inversion recovery)
qmri t1 fit-vfa	T1 mapping (variable flip angle)
qmri t2 fit	T2 mapping
qmri thermometry fit	MR thermometry

Design

The CLI wraps the core qmri library with a user-friendly interface. It uses Click for argument parsing and Rich for formatted output.

Documentation

Full documentation: https://gold-standard-phantoms.github.io/qmri/cli/

Licence

MIT