Bayesian Protein Family Classifier. - Kunbin Qu; Lee Ann McCue; Charles E. Lawrence (ISMB, 1998)

Analytics challenge - High-throughput visual analytics biological sciences: turning data into knowledge. - Christopher S. Oehmen; Lee Ann McCue; Joshua N. Adkins; Katrina M. Waters; Tim Carlson; William R. Cannon; Bobbie-Jo M. Webb-Robertson; Douglas J. Baxter; Elena S. Peterson; Mudita Singhal; Anuj R. Shah; Kyle R. Klicker (SC, 2006)

PhyloScan: identification of transcription factor binding sites using cross-species evidence. - C. Steven Carmack; Lee Ann McCue; Lee Aaron Newberg; Charles E. Lawrence (Algorithms Mol. Biol., 2007)

A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction. - Lee Aaron Newberg; William A. Thompson; Sean Conlan; Thomas M. Smith; Lee Ann McCue; Charles E. Lawrence (Bioinform., 2007)

The Gibbs Centroid Sampler. - William A. Thompson; Lee Aaron Newberg; Sean Conlan; Lee Ann McCue; Charles E. Lawrence (Nucleic Acids Res., 2007)

Measuring Global Credibility with Application to Local Sequence Alignment. - Bobbie-Jo M. Webb-Robertson; Lee Ann McCue; Charles E. Lawrence (PLoS Comput. Biol., 2008)

A Bayesian Integration Model of High-Throughput Proteomics and Metabolomics Data for Improved Early Detection of Microbial Infections. - Bobbie-Jo M. Webb-Robertson; Lee Ann McCue; Nathaniel Beagley; Jason E. McDermott; David S. Wunschel; Susan M. Varnum; Jian Zhi Hu; Nancy G. Isern; Garry W. Buchko; Kathleen McAteer; Joel G. Pounds (Pacific Symposium on Biocomputing, 2009)

SPOCS: software for predicting and visualizing orthology/paralogy relationships among genomes. - Darren S. Curtis; Aaron R. Phillips; Stephen J. Callister; Sean Conlan; Lee Ann McCue (Bioinform., 2013)

FQC Dashboard: integrates FastQC results into a web-based, interactive, and extensible FASTQ quality control tool. - Joseph W. Brown; Meg Pirrung; Lee Ann McCue (Bioinform., 2017)

Hundo: a Snakemake workflow for microbial community sequence data. - Joseph Brown; Nicole Zavoshy; Colin J. Brislawn; Lee Ann McCue (PeerJ Prepr., 2018)

ATLAS: a Snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data. - Silas Kieser; Joseph Brown; Evgeny M. Zdobnov; Mirko Trajkovski; Lee Ann McCue (BMC Bioinform., 2020)

ftmsRanalysis: An R package for exploratory data analysis and interactive visualization of FT-MS data. - Lisa M. Bramer; Amanda M. White; Kelly G. Stratton; Allison M. Thompson; Daniel Claborne; Kirsten Hofmockel; Lee Ann McCue (PLoS Comput. Biol., 2020)

Leveraging Ontologies within the National Microbiome Data Collaborative. - William D. Duncan; Faiza Ahmed; Fnu Anubhav; Jeffrey Baumes; Jonathan Beezley; Mark Borkum; Lisa M. Bramer; Shane Canon; Patrick S. G. Chain; Danielle Christianson; Yuri Corilo; Karen Davenport; et al. (ICBO, 2021)

Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale. - Bin Hu 025; Shane Canon; Emiley A. Eloe-Fadrosh; Fnu Anubhav; Michal Babinski; Yuri Corilo; Karen Davenport; William D. Duncan; Kjiersten Fagnan; Mark Flynn; Brian Foster; David Hays; et al. (Frontiers Bioinform., 2021)