— We describe a theoretical unifying framework to express comparison of RNA structures, which we call alignment hierarchy. This framework relies on the definition of common supe...
As we devise more complicated prior distributions, will inference algorithms keep up? We highlight a negative result in computable probability theory by Ackerman, Freer, and Roy (...
Reordering is a difficult task in translating between widely different languages such as Japanese and English. We employ the postordering framework proposed by (Sudoh et al., 201...
String kernels directly model sequence similarities without the necessity of extracting numerical features in a vector space. Since they better capture complex traits in the seque...
Motivation: Existing methods for protein sequence analysis are generally firstorder and inherently assume that each position is independent. We develop a general framework for int...
Martin Madera, Ryan Calmus, Grant Thiltgen, Kevin ...