Metadata-Version: 1.1
Name: oxasl-enable
Version: 0.0.2
Summary: Python implementation of the ENABLE quality-based volume selection algorithm for ASL-MRI data
Home-page: https://oxasl.readthedocs.io/
Author: Martin Craig
Author-email: martin.craig@eng.ox.ac.uk
License: License granted by University of Oxford for use by academics carrying out research and not for use by consumers or commercial businesses. See LICENSE file for more details
Description: # 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
        
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Intended Audience :: Science/Research
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: License :: Free for non-commercial use
