doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows. - Daniel Svensson; Rickard Sjögren; David Sundell; Andreas Sjödin; Johan Trygg (BMC Bioinform., 2019)

FlexTaxD: flexible modification of taxonomy databases for improved sequence classification. - David Sundell; Caroline Öhrman; Daniel Svensson; Edvin Karlsson; Björn Brindefalk; Kerstin Myrtennäs; Jon Ahlinder; Markus H. Antwerpen; Mathias C. Walter; Mats Forsman; Per Stenberg; Andreas Sjödin (Bioinform., 2021)

Nanometa Live: a user-friendly application for real-time metagenomic data analysis and pathogen identification. - Kristofer Sandås; Jacob Lewerentz; Edvin Karlsson; Linda Karlsson; David Sundell; Kotryna Simonyté-Sjödin; Andreas Sjödin (Bioinform., 2024)