oxasl-enable 0.0.2.post1

# ENABLE - ENhancement of Automated Blood fLow Estimates

ENABLE is a technique to evaulate image quality in multi-PLD ASL data.

*Shirzadi et al, "Enhancement of Automated Blood Flow Estimates (ENABLE) From
Arterial Spin-Labelled MRI" J Magn Reson Imaging. 2017 Jul 6. doi: 10.1002/jmri.25807*

ENABLE performs the following steps:

1. A **preprocessing** step, consisting of tag/control differencing, brain
extraction, T1 co-registration and segmentation

2. A **sorting** step in which quality measures are calculated for each
PLD image, namely:
- Contrast:Noise ratio in GM (CNR)
- Detectibility metric (DETECT, proportion of voxels with significantly greater than zero signal in GM)
- Coefficient of variation of difference data (COV, spatial standard deviation divided by spatial mean in GM)
- Temporal SNR (TSNR, spatial mean of ASL image divided by temporal STD image in GM)

3. A **selection** step in which a combined quality measure is calculated and the best image is identified:
- 0.1*CNR + 1.8*DETECT - COV - TSNR

4. A *CBF generation* step in which a CBF image is generated from the best image

## Usage

oxasl_enable -i <ASL input file> -t1 <T1 image> -n <Noise ROI image> -o <Output dir>

oxasl_enable can also be used as a plug-in for the OXASL ASL processing pipeline - see documentation
for this tool at:

https://oxasl.readthedocs.io/

### Options

--version show program's version number and exit
-h, --help show this help message and exit
-i INFILE ASL data file
--t1=T1 T1 map
-n NOISE Noise ROI
-o OUTPUT Output dir
--debug=DEBUG Debug mode