Steven A. Hofmeyr

Uncovering the Genomic Manifold via Scalable Learning from the Global Microbiome

The paper introduces GenomeOcean, a large-scale generative model trained on metagenomic data, to explore the genomic manifold hypothesis and demonstrates its alignment with another model.

Critical Assessment of Metagenome Interpretation - the second round of challenges

The paper evaluates metagenomic software tools using realistic datasets, highlighting improvements in assembly and taxon profiling while identifying remaining challenges in virus/archaea detection and reproducibility.

GPU accelerated partial order multiple sequencealignment for long reads self-correction

The paper introduces a GPU-accelerated partial order alignment method for improving the efficiency of long read error correction in sequencing technologies.