The　identification　of　the　brain　morphological　alterations　that　play　important　roles　in　neurodegenerative/neurological　diseases　will　contribute　to　our　understanding　of　the　causes　of　these　diseases.　Various　automated　software　programs　are　designed　to　provide　an　automatic　framework　to　detect　brain　morphological　changes　in　structural　magnetic　resonance　imaging　(MRI)　data.　A　voxel-based　morphometry　(VBM)　analysis　can　also　be　used　for　the　detection　of　brain　volumetric　abnormalities.　Here,　we　compared　gray　matter　(GM)　and　white　matter　(WM)　abnormality　results　obtained　by　a　VBM　analysis　using　the　Computational　Anatomy　Toolbox　(CAT12)　via　the　current　version　of　Statistical　Parametric　Mapping　software　(SPM12)　with　the　results　obtained　by　a　VBM　analysis　using　the　VBM8　toolbox　implemented　in　the　older　software　SPM8,　in　adult　temporal　lobe　epilepsy　(TLE)　patients　with　(n　=　51)　and　without　(n　=　57)　hippocampus　sclerosis　(HS),　compared　to　healthy　adult　controls　(n　=　28).　The　VBM　analysis　using　CAT12　showed　that　compared　to　the　healthy　controls,　significant　GM　and　WM　reductions　were　located　in　ipsilateral　mesial　temporal　lobes　in　the　TLE-HS　patients,　and　slight　GM　amygdala　swelling　was　present　in　the　right　TLE-no　patients　(n　=　27).　In　contrast,　the　VBM　analysis　via　the　VBM8　toolbox　showed　significant　GM　and　WM　reductions　only　in　the　left　TLE-HS　patients　(n　=　25)　compared　to　the　healthy　controls.　Our　findings　thus　demonstrate　that　compared　to　VBM8,　a　VBM　analysis　using　CAT12　provides　a　more　accurate　volumetric　analysis　of　the　brain　regions　in　TLE.　Our　results　further　indicate　that　a　VBM　analysis　using　CAT12　is　more　robust　and　accurate　against　volumetric　alterations　than　the　VBM8　toolbox.