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Algorithms for Molecular Biology : AMB|January 1, 2022
An optimized FM-index library for nucleotide and amino acid searchTim Anderson, Travis J WheelerBMC Bioinformatics|July 29, 2024
An FPGA-based hardware accelerator supporting sensitive sequence homology filtering with profile hidden Markov modelsTim Anderson, Travis J WheelerBiorxiv : the Preprint Server for Biology|July 15, 2025
Simpatico: accurate and ultra-fast virtual drug screening with atomic embeddingsJeremiah Gaiser, Travis J WheelerBiorxiv : the Preprint Server for Biology|May 15, 2024
Diviner uncovers hundreds of novel human (and other) exons though comparative analysis of proteinsAlexander J Nord, Travis J WheelerBioinformatics (Oxford, England)|July 12, 2013
nhmmer: DNA homology search with profile HMMsTravis J Wheeler, Sean R EddyBioinformatics (Oxford, England)|July 25, 2007
Multiple alignment by aligning alignmentsTravis J Wheeler, John D KececiogluPlos One|May 8, 2023
Mirage2's high-quality spliced protein-to-genome mappings produce accurate multiple-sequence alignments of isoformsAlexander J Nord, Travis J WheelerBioinformatics Advances|May 20, 2024
WAS IT A MATch I SAW? Approximate palindromes lead to overstated false match rates in benchmarks using reversed sequencesGeorge Glidden-Handgis, Travis J WheelerBioinformatics Advances|November 22, 2024
ULTRA-effective labeling of tandem repeats in genomic sequenceDaniel R Olson, Travis J WheelerBiorxiv : the Preprint Server for Biology|June 19, 2024
ULTRA-Effective Labeling of Repetitive Genomic SequenceDaniel R Olson, Travis J WheelerPageof 13