GOLD-Graphical Overview of Linkage Disequilibrium. - Gonçalo R. Abecasis; W. O. C. Cookson (Bioinform., 2000)

GRR: graphical representation of relationship errors. - Gonçalo R. Abecasis; Stacey S. Cherny; W. O. C. Cookson; Lon R. Cardon (Bioinform., 2001)

PEDSTATS: descriptive statistics, graphics and quality assessment for gene mapping data. - Janis E. Wigginton; Gonçalo R. Abecasis (Bioinform., 2005)

An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria. - Zhaohui S. Qin; Shyam Gopalakrishnan; Gonçalo R. Abecasis (Bioinform., 2006)

GENOME: a rapid coalescent-based whole genome simulator. - Liming Liang 002; Sebastian Zöllner; Gonçalo R. Abecasis (Bioinform., 2007)

GWAS GUI: graphical browser for the results of whole-genome association studies with high-dimensional phenotypes. - Wei Chen; Liming Liang 002; Gonçalo R. Abecasis (Bioinform., 2009)

The Sequence Alignment/Map format and SAMtools. - Heng Li 002; Bob Handsaker; Alec Wysoker; Tim Fennell; Jue Ruan; Nils Homer; Gabor T. Marth; Gonçalo R. Abecasis; Richard Durbin (Bioinform., 2009)

LocusZoom: regional visualization of genome-wide association scan results. - Randall J. Pruim; Ryan P. Welch; Serena Sanna; Tanya M. Teslovich; Peter S. Chines; Terry P. Gliedt; Michael Boehnke; Gonçalo R. Abecasis; Cristen J. Willer (Bioinform., 2010)

METAL: fast and efficient meta-analysis of genomewide association scans. - Cristen J. Willer; Yun Li; Gonçalo R. Abecasis (Bioinform., 2010)

The variant call format and VCFtools. - Petr Danecek; Adam Auton; Gonçalo R. Abecasis; Cornelis A. Albers; Eric Banks; Mark A. DePristo; Robert E. Handsaker; Gerton Lunter; Gabor T. Marth; Stephen T. Sherry; Gilean McVean; Richard Durbin (Bioinform., 2011)

Imputation of coding variants in African Americans: better performance using data from the exome sequencing project. - Qing Duan; Eric Yi Liu; Paul L. Auer; Guosheng Zhang; Ethan M. Lange; Goo Jun; Chris Bizon; Shuo Jiao; Steven Buyske; Nora Franceschini; Chris S. Carlson; Li Hsu; et al. (Bioinform., 2013)

AbCD: arbitrary coverage design for sequencing-based genetic studies. - Jian Kang 003; Kuan-Chieh Huang; Zheng Xu 010; Yunfei Wang; Gonçalo R. Abecasis; Yun Li (Bioinform., 2013)

RAREMETAL: fast and powerful meta-analysis for rare variants. - Shuang Feng; Dajiang Liu; Xiaowei Zhan; Mary Kate Wing; Gonçalo R. Abecasis (Bioinform., 2014)

minimac2: faster genotype imputation. - Christian Fuchsberger; Gonçalo R. Abecasis; David A. Hinds (Bioinform., 2015)

Unified representation of genetic variants. - Adrian Tan; Gonçalo R. Abecasis; Hyun Min Kang (Bioinform., 2015)

Graphical algorithm for integration of genetic and biological data: proof of principle using psoriasis as a model. - Lam C. Tsoi; James T. Elder; Gonçalo R. Abecasis (Bioinform., 2015)

Comparing variant calling algorithms for target-exon sequencing in a large sample. - Yancy Lo; Hyun Min Kang; Matthew R. Nelson; Mohammad I. Othman; Stephanie L. Chissoe; Margaret G. Ehm; Gonçalo R. Abecasis; Sebastian Zöllner (BMC Bioinform., 2015)

RVTESTS: an efficient and comprehensive tool for rare variant association analysis using sequence data. - Xiaowei Zhan; Youna Hu; Bingshan Li; Gonçalo R. Abecasis; Dajiang J. Liu (Bioinform., 2016)

The All of Us Research Program Researcher Portal: Innovative access to Unprecendented Data. - Andrea H. Ramirez; Anthony A. Philippakis; Gonçalo R. Abecasis; Paul A. Harris; Joshua C. Denny (AMIA, 2017)

fastMitoCalc: an ultra-fast program to estimate mitochondrial DNA copy number from whole-genome sequences. - Yong Qian; Thomas J. Butler; Krista Opsahl-Ong; Nicholas S. Giroux; Carlo Sidore; Ramaiah Nagaraja; Francesco Cucca; Luigi Ferrucci; Gonçalo R. Abecasis; David Schlessinger; Jun Ding (Bioinform., 2017)

LASER server: ancestry tracing with genotypes or sequence reads. - Daniel Taliun; Sonia P. Chothani; Sebastian Schönherr; Lukas Forer; Michael Boehnke; Gonçalo R. Abecasis; Chaolong Wang (Bioinform., 2017)

emeraLD: rapid linkage disequilibrium estimation with massive datasets. - Corbin Quick; Christian Fuchsberger; Daniel Taliun; Gonçalo R. Abecasis; Michael Boehnke; Hyun Min Kang (Bioinform., 2019)

LocusZoom.js: interactive and embeddable visualization of genetic association study results. - Andrew P. Boughton; Ryan P. Welch; Matthew Flickinger; Peter VandeHaar; Daniel Taliun; Gonçalo R. Abecasis; Michael Boehnke (Bioinform., 2021)

Sparse allele vectors and the savvy software suite. - Jonathon LeFaive; Albert V. Smith; Hyun Min Kang; Gonçalo R. Abecasis (Bioinform., 2021)

FIVEx: an interactive eQTL browser across public datasets. - Alan Kwong; Andrew P. Boughton; Mukai Wang; Peter VandeHaar; Michael Boehnke; Gonçalo R. Abecasis; Hyun Min Kang (Bioinform., 2022)

A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies. - Xihao Li; Han Chen; Margaret Sunitha Selvaraj; Eric Van Buren; Hufeng Zhou; Yuxuan Wang 008; Ryan Sun; Zachary R. McCaw; Zhi Yu; Min-Zhi Jiang; Daniel DiCorpo; Sheila M. Gaynor; et al. (Nat. Comput. Sci., 2025)