Author
University of ArizonaORCID 0000-0001-6055-7706Unclaimed ORCID profile · follow to get notified of new preprints
5 papers
Recent·Most cited
Daniel R. Olson, Thomas H. Colligan, Daphne Demekas…·Travis J. Wheeler
NEAR improves homology detection speed and accuracy by using neural embeddings trained with contrastive learning, outperforming existing methods as a pre-filter for protein sequence annotation.
David Geller‐McGrath, Kishori M. Konwar, Virginia P. Edgcomb…·Jason McDermott
MetaPathPredict predicts KEGG module presence in incomplete bacterial genomes using machine learning models.
Conner Copeland, Jack W. Roddy, Amelia K. Schmidt…·Travis J. Wheeler
VIBES automates prophage annotation in bacterial genomes and provides visualization tools, demonstrating its utility across 1,072 Pseudomonas genomes.
Jack W. Roddy, David H. Rich, Travis J. Wheeler
nail provides a fast and accurate sequence annotation tool using profile hidden Markov models, outperforming HMMER3 in speed while maintaining high recall.
Kaitlin M. Carey, Robert M. Hubley, George T. Lesica…·Travis J. Wheeler
PolyA adjudicates competing sequence annotations by computing confidence estimates and identifying optimal alignments with rearrangements.