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Updated: Jan 25, 2026

Infinium Assay for Large-scale SNP Genotyping Applications
Published on: November 19, 2013
gpart: human genome partitioning and visualization of high-density SNP data by identifying haplotype blocks
Sun Ah Kim1, Myriam Brossard2, Delnaz Roshandel3
1The Research Institute of Basic Sciences, Seoul National University, Seoul, South Korea.
Summary:
For the analysis of high-throughput genomic data produced by next-generation sequencing (NGS) technologies, researchers need to identify linkage disequilibrium (LD) structure in the genome. In this work, we developed an R package gpart which provides clustering algorithms to define LD blocks or analysis units consisting of SNPs. The visualization tool in gpart can display the LD structure and gene positions for up to 20 000 SNPs in one image. The gpart functions facilitate construction of LD blocks and SNP partitions for vast amounts of genome sequencing data within reasonable time and memory limits in personal computing environments.
Availability And Implementation:
The R package is available at https://bioconductor.org/packages/gpart.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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