Author
Aalborg UniversityORCID 0000-0002-0233-160XUnclaimed ORCID profile · follow to get notified of new preprints
6 papers
Recent·Most cited
Caitlin M. Singleton, Thomas Bygh Nymann Jensen, Francesco Delogu…·Mads Albertsen
Microflora Danica compiles 10,686 shotgun metagenomes and 449 rRNA datasets to create an atlas of Danish environmental microbiomes, revealing hidden homogeneity and novel nitrifiers.
Jinbei Li, Bjarke Erichsen, Simon R Krarup…·Alex Toftgaard Nielsen
MillionFull collects large-scale sequence-fitness data for enzymes at low cost, enabling machine learning for enzyme engineering.
Daniel T. McDonald, Yueyu Jiang, Metin Balaban…·Rob D. Knight
Greengenes2 aligns 16S rRNA and shotgun metagenomic data using a whole-genome phylogeny, showing agreement in principal coordinates, taxonomy, and phenotype effect size.
Søren Michael Karst, Ryan M. Ziels, Rasmus Hansen Kirkegaard…·Mads Albertsen
Dual patterned unique molecular identifiers (UMIs) turn Nanopore or PacBio CCS reads of ~4400 bp rRNA operons into single-molecule consensus sequences with 0.0049% (ONT) or 0.0006% (PacBio) mean error.
Kasper Skytte Andersen, Rasmus Hansen Kirkegaard, Søren Michael Karst, Mads Albertsen
ampvis2 unifies 16S amplicon count tables, taxonomy, and sample metadata in one R object, feeding ggplot2 heatmaps at any taxonomic rank and single-call ordination (seven methods).
Søeren M. Karst, Rasmus H. Kirkegaard, Mads Albertsen
The paper introduces mmgenome, a toolbox for reproducible genome extraction from metagenomes, integrating binning strategies, visualization, validation, and full reproducibility through Rmarkdown.