3 citations · 4 across the 2 of their papers we have counts for
4 papers
BIOTRAM: Biochemistry-informed Transformer for Relative Abundance via Metabarcoding
Emma Boehly, Scott C. Lowe, Ken A. Thompson +70
Arthropod monitoring at scale begins with metabarcoding of bulk samples: trap collections of hundreds to thousands of specimens processed as one unit, extraction of DNA from the bu…
BarcodeMamba+: Advancing State-Space Models for Fungal Biodiversity Research
Tiancheng Gao, Scott C. Lowe, Brendan Furneaux +2
Accurate taxonomic classification from DNA barcodes is a cornerstone of global biodiversity monitoring, yet fungi present extreme challenges due to sparse labelling and long-tailed…
A multi-modal dataset for insect biodiversity with imagery and DNA at the trap and individual level
Johanna Orsholm, John Quinto, Hannu Autto +26
Insects comprise millions of species, many experiencing severe population declines under environmental and habitat changes. High-throughput approaches are crucial for accelerating…
OptimOTU: Taxonomically aware OTU clustering with optimized thresholds and a bioinformatics workflow for metabarcoding data
Brendan Furneaux, Sten Anslan, Panu Somervuo +4
To turn environmentally derived metabarcoding data into community matrices for ecological analysis, sequences must first be clustered into operational taxonomic units (OTUs). This…