Efficient estimation of emission probabilities in profile hidden Markov models. - Virpi Ahola; Tero Aittokallio; Esa Uusipaikka; Mauno Vihinen (Bioinform., 2003)

A statistical score for assessing the quality of multiple sequence alignments. - Virpi Ahola; Tero Aittokallio; Mauno Vihinen; Esa Uusipaikka (BMC Bioinform., 2006)

Model-based prediction of sequence alignment quality. - Virpi Ahola; Tero Aittokallio; Mauno Vihinen; Esa Uusipaikka (Bioinform., 2008)