Dave Sim's Cerebus
It's not japanese though, but the scope of that project is amazing.
As for honest to goodness manga.. check out the Dragonball and Dragaonball Z manga. I never in my life thought i would be typing that, but it's awefully long and very well done for the time it was published.
"LoneWolf and Cub" and "Blade the immortal" are both great works to check out as well. Almost anything that is loosley based off Jubei, or Yojimbo are going to be epic tales. The question i pose to you is ... are you talking about scope of story or sheer size/ length of the manga?
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