DOI: 10.18129/B9.bioc.gpart    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see gpart.

Human genome partitioning of dense sequencing data by identifying haplotype blocks

Bioconductor version: 3.8

we provide a new SNP sequence partitioning method which partitions the whole SNP sequence based on not only LD block structures but also gene location information. The LD block construction for GPART is performed using Big-LD algorithm, with additional improvement from previous version reported in Kim et al.(2017). We also add a visualization tool to show the LD heatmap with the information of LD block boundaries and gene locations in the package.

Author: Sun Ah Kim [aut, cre, cph], Yun Joo Yoo [aut, cph]

Maintainer: Sun Ah Kim <sunnyeesl at>

Citation (from within R, enter citation("gpart")):


To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



HTML R Script Your Vignette Title
PDF   Reference Manual
Text   NEWS


biocViews Clustering, Software
Version 1.0.3
In Bioconductor since BioC 3.8 (R-3.5) (0.5 years)
License MIT + file LICENSE
Depends R (>= 3.5.0), grid, Homo.sapiens, TxDb.Hsapiens.UCSC.hg38.knownGene
Imports igraph, biomaRt, Rcpp, data.table, OrganismDbi, AnnotationDbi, grDevices, stats, utils, GenomicRanges, IRanges
LinkingTo Rcpp
Suggests knitr, rmarkdown, BiocStyle, testthat
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package gpart_1.0.3.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) gpart_1.0.3.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: