joshicola/gannet

Gannet analysis of edited MRS data

scitran/gannet

Build context for a Flywheel Gear that can run Gannet.

Gannet is a software package designed for the analysis of edited magnetic resonance spectroscopy (MRS) data. Gannet runs in Matlab and is available as code rather than executables, empowering users to make local changes. Gannet is designed to run without user intervention, to remove operator variance from the quantification of edited MRS data. This Gear uses a compiled version (2.1 or 3.0) from huawu02/Gannet_bin, which is modified for v2.1 to support latest generation GE P-Files, and is executed using the Matlab Compiler Runtime.

The manifest allows for configuration of which metabolite is targeted for analysis with GannetFit. Options are GABA, Glx or GABAGlx. Default is GABAGlx.

This Gear runs GannetLoad, GannetFit, and optionally GannetCoregister and GannetSegment if a T1w image is passed in.

Outputs are: <exam_sub>_MRS_struct_GABAGlx.mat, <exam_sub>_MRSfit_GABA.pdf, and <exam_sub>_MRSload.pdf.