Dear Dr. Fischl,

Thanks for your quick reply.

Attached you will find some images (image 1&2) showing the issues we're having (I'll send a second e-mail including image 3&4).

The images are as follows:

1.) sagittal_1353_norm2+3T_vs_default -> the v5.3 suggested norm2 flags (from the release notes) and the -3T flag vs. the default v5.3 pipeline. Blue is the norm2/3T flag pipeline, yellow is the default.

2.) sagittal_1353_wusl_vs_default->v5.3 using the -washu_mprage flag, obvious improvement in temporal lobe pial surface. Blue is -washu_mprage flag, yellow is the default v5.3 pipeline

3.) axial_1353_norm2+3T_white -> The white surface, which appears OK using v5.3 with the suggested norm2 parameters and the -3T flag

4.) axial_1353_wusl_white_error -> the white surface, with an obvious error in the lh_postcentral area, using the -washu_mprage flag.

Let me know if you have any suggestions on other parameters I should try to improve the temporal lobe pial surface, without compromising the white matter surface reconstruction.

Sincerely,