Facilitating accessible, rapid, and appropriate processing of ancient metagenomic data with AMDirT. F1000Research, 2023.
TAXPASTA: TAXonomic Profile Aggregation and STAndardisation. Journal of Open Source Software, 2023.
Natural Products from Reconstructed Bacterial Genomes of the Middle and Upper Paleolithic. Science, 2023.
sam2lca: Lowest Common Ancestor for SAM/BAM/CRAM alignment files. Journal of Open Source Software, 2022.
PyDamage: automated ancient damage identification and estimation for contigs in ancient DNA de novo assembly. PeerJ, 2021.
Reconstruction of ancient microbial genomes from the human gut. Nature, 2021.
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager. PeerJ, 2021.
Community-curated and standardised metadata of published ancient metagenomic samples with AncientMetagenomeDir. Scientific Data, 2021.