Hi,
I have the same problem as you: I use vff format, it's a raw encapsulation . I do my CT reconstructions with the software manufacturer.
You can try to use the plugin tomoj:
http://u759.curie.fr/en/download/softwares/tomoj/tomoj-00747If the community has a solution of reconstruction, I'm interested also.
Best regards
Inserm U1034 “Adaptation cardiovasculaire à l’ischémie”