galaxie-CGI scripts for sequence identification through automated phylogenetic analysis. - R. Henrik Nilsson; Karl-Henrik Larsson; Björn M. Ursing (Bioinform., 2004)

galaxieEST: addressing EST identity through automated phylogenetic analysis. - R. Henrik Nilsson; Balaji Rajashekar; Karl-Henrik Larsson; Björn M. Ursing (BMC Bioinform., 2004)

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)

Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi. - Conrad L. Schoch; Barbara Robbertse; Vincent Robert; Duong Vu; Gianluigi Cardinali; Laszlo Irinyi; Wieland Meyer; R. Henrik Nilsson; Karen Hughes; Andrew N. Miller; Paul M. Kirk; Kessy Abarenkov; et al. (Database J. Biol. Databases Curation, 2014)

Unbiased probabilistic taxonomic classification for DNA barcoding. - Panu Somervuo; Sonja Koskela; Juho Pennanen; R. Henrik Nilsson; Otso Ovaskainen (Bioinform., 2016)

Metaxa2 Diversity Tools: Easing microbial community analysis with Metaxa2. - Johan Bengtsson-Palme; Kaisa Thorell; Christian Wurzbacher; Åsa Sjöling; R. Henrik Nilsson (Ecol. Informatics, 2016)

Metaxa2 Database Builder: enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker. - Johan Bengtsson-Palme; Rodney T. Richardson; Marco Meola; Christian Wurzbacher; Émilie D. Tremblay; Kaisa Thorell; Kärt Kanger; K. Martin Eriksson; Guillaume J. Bilodeau; Reed M. Johnson; Martin Hartmann; R. Henrik Nilsson (Bioinform., 2018)

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. - R. Henrik Nilsson; Karl-Henrik Larsson; Andy F. S. Taylor; Johan Bengtsson-Palme; Thomas S. Jeppesen; Dmitry Schigel; Peter Kennedy; Kathryn Picard; Frank Oliver Glöckner; Leho Tedersoo; Irja Saar; Urmas Kõljalg; et al. (Nucleic Acids Res., 2019)

EUKARYOME: the rRNA gene reference database for identification of all eukaryotes. - Leho Tedersoo; Mahdieh S. Hosseyni Moghaddam; Vladimir Mikryukov; Ali Hakimzadeh; Mohammad Bahram; R. Henrik Nilsson; Iryna Yatsiuk; Stefan Geisen; Arne Schwelm; Kasia Piwosz; Marko Prous; Sirje Sildever; et al. (Database J. Biol. Databases Curation, 2024)