I am using mris_fill to create a volume from the lh.pial surface as well as the rh.pial surface.  I have 2 questions:

1. How can I combine the 2 separate hemisphere volumes into a single full brain volume that I can export and view in analyze?  I only know to use mri_convert on each one separately.  Does this need to be done before I run mris_fill, or is there another combined surface that has the same resolution as the pial surfaces that I can run mris_fill on?
2. I know that when I run mris_fill, the volumes that are produced do not contain orientation information.  When I load them into Analyze, the volume is mirrored and upside down.  I was wondering how I can “get” orientation information back into the volume, and also correct the mirrored and upside down viewing issue. 

These results were produced by Freesurfer from standard dicom files from a volumetric scan. 

Thanks,

Cochrane Jamison