fsl.scripts.fsl_ents

This module defines the fsl_ents script, for extracting component time series from a MELODIC .ica directory.

fsl.scripts.fsl_ents.parseArgs(args)

Parses command line arguments.

Parameters:

args – Sequence of command line arguments.

Returns:

An argparse.Namespace object containing parsed arguments.

fsl.scripts.fsl_ents.genComponentIndexList(comps, ncomps)

Turns the given sequence of integers and file paths into a list of 0-based component indices.

Parameters:

• comps – Sequence containing 1-based component indices, and/or paths to FIX/AROMA label text files.

• ncomps – Number of components in the input data - indices larger than this will be ignored.

Returns:

List of 0-based component indices.

fsl.scripts.fsl_ents.loadConfoundFiles(conffiles, npts)

Loads the given confound files, and copies them all into a single 2D (npoints, nconfounds) matrix.

Parameters:

• conffiles – Sequence of paths to files containing confound time series (where each row corresponds to a time point, and each column corresponds to a single confound).

• npts – Expected number of time points

Returns:

A (npoints, nconfounds) numpy matrix.

fsl.scripts.fsl_ents.main(argv=None)

Entry point for the fsl_ents script.

Identifies component time series to extract, extracts them, loads extra confound files, and saves them out to a file.