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This is the development version of MungeSumstats; for the stable release version, see MungeSumstats.

Standardise summary statistics from GWAS

Bioconductor version: Development (3.20)

The *MungeSumstats* package is designed to facilitate the standardisation of GWAS summary statistics. It reformats inputted summary statisitics to include SNP, CHR, BP and can look up these values if any are missing. It also pefrorms dozens of QC and filtering steps to ensure high data quality and minimise inter-study differences.

Author: Alan Murphy [aut, cre] , Brian Schilder [aut, ctb] , Nathan Skene [aut]

Maintainer: Alan Murphy <alanmurph94 at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

docker HTML R Script
MungeSumstats HTML R Script
OpenGWAS HTML R Script
Reference Manual PDF


biocViews ComparativeGenomics, Genetics, GenomeWideAssociation, GenomicVariation, Preprocessing, SNP, Software, WholeGenome
Version 1.13.2
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License Artistic-2.0
Depends R (>= 4.1)
Imports magrittr, data.table, utils, R.utils, dplyr, stats, GenomicRanges, IRanges, GenomeInfoDb, BSgenome, Biostrings, stringr, VariantAnnotation, googleAuthR, httr, jsonlite, methods, parallel, rtracklayer(>= 1.59.1), RCurl
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Suggests SNPlocs.Hsapiens.dbSNP144.GRCh37, SNPlocs.Hsapiens.dbSNP144.GRCh38, SNPlocs.Hsapiens.dbSNP155.GRCh37, SNPlocs.Hsapiens.dbSNP155.GRCh38, BSgenome.Hsapiens.1000genomes.hs37d5, BSgenome.Hsapiens.NCBI.GRCh38, BiocGenerics, S4Vectors, rmarkdown, markdown, knitr, testthat (>= 3.0.0), UpSetR, BiocStyle, covr, Rsamtools, MatrixGenerics, badger, BiocParallel, GenomicFiles
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Follow Installation instructions to use this package in your R session.

Source Package MungeSumstats_1.13.2.tar.gz
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macOS Binary (x86_64) MungeSumstats_1.13.2.tgz
macOS Binary (arm64) MungeSumstats_1.13.2.tgz
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Source Repository (Developer Access) git clone
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