Yes, nearly all tours that visit the South Island will include the TranzAlpine Scenic Rail Journey. Not all tours, however, complete the full trip from Greymouth to Christchurch (or v.v.). Many do just Arthurs Pass to Christchurch (or v.v.). All our independent tours which include the TranzAlpine train complete the entire journey.
Or get in touch with the team if you have a specific question.