ALT

Alternative Labeling Tool for labeling independent components derived from FSL MELODIC/FEAT as signal vs noise

Installation

ALT requires a working installation of FSL and octave or matlab (tested on matlab R2016a)

Example walkthrough

1. First, run alt.sh on the melodic folder to generate the % of IC falling in gray matter and IC's power spectrum skewness metrics

   alt.sh <mypathtofolder>/sub-001_rsfmri.ica

2. Second, run cleaning.m on the melodic folder to generate the signal vs noise label

   (in octave or matlab): cleaning('<mypathtofolder>/sub-001_rsfmri.ica')

3. Optional: use manual labeling on a number of scans and compare labeling performance of ALT with manual ratings using evaluation.m

   (in octave or matlab): evaluation('<mypathtofolder>/sub-001_rsfmri.ica', manual_labels)

The example_evaluation.m script provides some shell code that strips manual labels from unnecessary information and generates the confusion matrices.

Citations

A detailed manuscript on ALT is currently available at Brain Imaging and Behavior:

https://link.springer.com/article/10.1007/s11682-022-00650-9

and the original preprint here:

https://assets.researchsquare.com/files/rs-1061924/v1/ceb1b779-4c5c-4109-968d-108bdf1719be.pdf?c=1637336355