MIPS code compression - Tommi Hirvola (CoRR, 2012)

Hybrid Indexes for Repetitive Datasets. - Héctor Ferrada; Travis Gagie; Tommi Hirvola; Simon J. Puglisi (CoRR, 2013)

AliBI: An Alignment-Based Index for Genomic Datasets. - Héctor Ferrada; Travis Gagie; Tommi Hirvola; Simon J. Puglisi (CoRR, 2013)

Improved Two-Way Bit-parallel Search. - Branislav Durian; Tamanna Chhabra; Sukhpal Singh Ghuman; Tommi Hirvola; Hannu Peltola; Jorma Tarhio (Stringology, 2014)

Approximate Online Matching of Circular Strings. - Tommi Hirvola; Jorma Tarhio (SEA, 2014)

Bit-Parallel Approximate Matching of Circular Strings with k Mismatches. - Tommi Hirvola; Jorma Tarhio (ACM J. Exp. Algorithmics, 2017)

A Graph-Theoretical Approach for Motif Discovery in Protein Sequences. - Elena Czeizler; Tommi Hirvola; Kalle Karhu (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)