Approaching the taxonomic affiliation of unidentified sequences in public databases - an example from the mycorrhizal fungi. - R. Henrik Nilsson; Erik Kristiansson; Martin Ryberg; Karl-Henrik Larsson (BMC Bioinform., 2005)

A software pipeline for processing and identification of fungal ITS sequences. - R. Henrik Nilsson; Gunilla Bok; Martin Ryberg; Erik Kristiansson; Nils Hallenberg (Source Code Biol. Medicine, 2009)

DivBayes and SubT: exploring species diversification using Bayesian statistics. - Martin Ryberg; R. Henrik Nilsson; P. Brandon Matheny (Bioinform., 2011)

Phylommand - a command line software package for phylogenetics. - Martin Ryberg (F1000Research, 2016)

ARBitR: an overlap-aware genome assembly scaffolder for linked reads. - Markus Hiltunen; Martin Ryberg; Hanna Johannesson (Bioinform., 2021)