Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads. - Ruping Sun; Michael I. Love; Tomasz Zemojtel; Anne-Katrin Emde; Ho-Ryun Chung; Martin Vingron; Stefan A. Haas (Bioinform., 2012)

Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification. - Michael I. Love; Charlotte Soneson; Rob Patro (F1000Research, 2018)

coTRaCTE predicts co-occurring transcription factors within cell-type specific enhancers. - Alena van Bömmel; Michael I. Love; Ho-Ryun Chung; Martin Vingron (PLoS Comput. Biol., 2018)

SAFE-clustering: Single-cell Aggregated (from Ensemble) clustering for single-cell RNA-seq data. - Yuchen Yang; Ruth Huh; Houston W. Culpepper; Yuan Lin; Michael I. Love; Yun Li (Bioinform., 2019)

Heavy-tailed prior distributions for sequence count data: removing the noise and preserving large differences. - Anqi Zhu; Joseph G. Ibrahim; Michael I. Love (Bioinform., 2019)

Consistency and overfitting of multi-omics methods on experimental data. - Sean D. McCabe; Dan-Yu Lin; Michael I. Love (Briefings Bioinform., 2020)

Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data. - Hirak Sarkar; Avi Srivastava; Héctor Corrada Bravo; Michael I. Love; Rob Patro (Bioinform., 2020)

Finding Stable Groups of Cross-Correlated Features in Multi-View data. - Miheer Dewaskar; John Palowitch; Mark He; Michael I. Love; Andrew B. Nobel (CoRR, 2020)

Tximeta: Reference sequence checksums for provenance identification in RNA-seq. - Michael I. Love; Charlotte Soneson; Peter F. Hickey; Lisa K. Johnson; N. Tessa Pierce; Lori A. Shepherd; Martin Morgan; Rob Patro (PLoS Comput. Biol., 2020)

An approach for normalization and quality control for NanoString RNA expression data. - Arjun Bhattacharya; Alina M. Hamilton; Helena Furberg; Eugene Pietzak; Mark P. Purdue; Melissa A. Troester; Katherine A. Hoadley; Michael I. Love (Briefings Bioinform., 2021)

Compression of quantification uncertainty for scRNA-seq counts. - Scott Van Buren; Hirak Sarkar; Avi Srivastava; Naim U. Rashid; Rob Patro; Michael I. Love (Bioinform., 2021)

Plotgardener: cultivating precise multi-panel figures in R. - Nicole E. Kramer; Eric S. Davis; Craig Wenger; Erika Deoudes; Sarah M. Parker; Michael I. Love; Douglas H. Phanstiel (Bioinform., 2022)

Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets. - Wancen Mu; Hirak Sarkar; Avi Srivastava; Kwangbom Choi; Rob Patro; Michael I. Love (Bioinform., 2022)

Finding Groups of Cross-Correlated Features in Bi-View Data. - Miheer Dewaskar; John Palowitch; Mark He; Michael I. Love; Andrew B. Nobel (J. Mach. Learn. Res., 2023)

excluderanges: exclusion sets for T2T-CHM13, GRCm39, and other genome assemblies. - Jonathan D. Ogata; Wancen Mu; Eric S. Davis; Bingjie Xue; J. Chuck Harrell; Nathan C. Sheffield; Douglas H. Phanstiel; Michael I. Love; Mikhail G. Dozmorov (Bioinform., 2023)

matchRanges: generating null hypothesis genomic ranges via covariate-matched sampling. - Eric S. Davis; Wancen Mu; Stuart Lee; Mikhail G. Dozmorov; Michael I. Love; Douglas H. Phanstiel (Bioinform., 2023)

bootRanges: flexible generation of null sets of genomic ranges for hypothesis testing. - Wancen Mu; Eric S. Davis; Stuart Lee; Mikhail G. Dozmorov; Douglas H. Phanstiel; Michael I. Love (Bioinform., 2023)

Comprehensive evaluation of methods for differential expression analysis of metatranscriptomics data. - Hunyong Cho; Yixiang Qu; Chuwen Liu; Boyang Tang; Ruiqi Lyu; Bridget M. Lin; Jeffrey Roach; M. Andrea Azcarate-Peril; Apoena Aguiar Ribeiro; Michael I. Love; Kimon Divaris; Di Wu 073 (Briefings Bioinform., 2023)

Perceptual and technical barriers in sharing and formatting metadata accompanying omics studies. - Yu-Ning Huang; Michael I. Love; Cynthia Flaire Ronkowski; Dhrithi Deshpande; Lynn M. Schriml; Annie Wong-Beringer; Barend Mons; Russell Corbett-Detig; Christopher I Hunter; Jason H. Moore; Lana X. Garmire; T. B. K. Reddy; et al. (CoRR, 2024)