comparison with lcmodel gui analyses

[rob-mccutcheon]

Dear Dr Near and other FIDF-A analyses,

Thank you very much for making your work openly available.

I have been processing some GE P files using FID-A (with run_pressproc_GEauto) to generate raw (water suppressed and unsuppressed) files, that I then analyse using lcmodel via the command line. I have found that this results in slightly different metabolite concentrations, and slightly worse S/N ratios compared to just running the P file through the lcmodel GUI. I was wondering if you had any idea why this may be occurring, or any advice to hopefully get the command line results to match the GUI results?

Thank you!!

Rob

[rob-mccutcheon]

Just a brief update - using the unprocessed raw files which written to disk automatically gives a much closer match with the lcmgui results (although still not 100%)