RegionScan: A comprehensive R package for region-level genome-wide association testing with integration and visualization of multiple-variant and single-variant hypothesis testing

Summary RegionScan is an R package for comprehensive and scalable genome-wide association testing of region-level multiple-variant and single-variant statistics and visualization of the results. It implements various state-of-the-art region-level tests to improve signal detection under heterogeneous genetic architectures and facilitates comparison of multiple-variant region-level and single-variant test results. It exploits local linkage disequilibrium (LD) structure for genomic partitioning and LD-adaptive region definition. RegionScan is compatible with VCF input file formats for genotyped and imputed variants, and options are available for analysis of multi-allelic variants and unbalanced binary phenotypes. It accommodates parallel region-level processing and analysis to improve computational time and memory efficiency and provides detailed outputs and utility functions to assist results comparison, visualization, and interpretation. Availability and implementation RegionScan is freely available for download on GitHub (). Contact bull{at}lunenfeld.ca, brossard{at}lunenfeld.ca. Supplementary information Supplementary data are available at Bioinformatics online. ### Competing Interest Statement The authors have declared no competing interest.