Eval: A software package for analysis of genome annotations. - Evan Keibler; Michael R. Brent (BMC Bioinform., 2003)

The Treeterbi and Parallel Treeterbi algorithms: efficient, optimal decoding for ordinary, generalized and pair HMMs. - Evan Keibler; Manimozhiyan Arumugam; Michael R. Brent (Bioinform., 2007)