Mishnah and Tosefta were compiled into methodical masechtos/sedorim and books (as in nowadays physical books). Is there a compilation or list of all the Braisos quoted in Shas Bavli/Yerushalmi?
The book אוצר הברייתות (available in ten volumes on Hebrewbooks.org) claims to collect all the baraytot (he says over 18,000) from both the Bavli and Yerushalmi, arranged topically. He also gives short notes on each one with references to other places in the literature (such as Tosefta and Midrashim).
The first volume is here; the others can be searched for easily with the words אוצר הברייתות.