Package: MungeSumstats
Type: Package
Title: Standardise summary statistics from GWAS
Version: 1.19.1
Authors@R: 
    c(person(given = "Alan",
           family = "Murphy",
           role = c("aut","cre"),
           email = "alanmurph94@hotmail.com",
           comment = c(ORCID = "0000-0002-2487-8753")),
     person(given = "Brian",
           family = "Schilder",
           role = c("aut","ctb"),
           email = "brian_schilder@alumni.brown.edu",
           comment = c(ORCID = "0000-0001-5949-2191")),
    person(given = "Nathan",
           family = "Skene",
           role = c("aut"),
           email = "nathan.skene@gmail.com",
           comment = c(ORCID = "0000-0002-6807-3180"))) 
Description: 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.
URL: https://github.com/neurogenomics/MungeSumstats,
        https://al-murphy.github.io/MungeSumstats/
BugReports: https://github.com/neurogenomics/MungeSumstats/issues
License: Artistic-2.0
Depends: R(>= 4.1)
Imports: data.table, utils, R.utils, dplyr, stats, GenomicRanges,
        GenomeInfoDb, IRanges, ieugwasr(>= 1.0.1), BSgenome,
        Biostrings, stringr, VariantAnnotation, methods, parallel,
        rtracklayer(>= 1.59.1), RCurl
biocViews: SNP, WholeGenome, Genetics, ComparativeGenomics,
        GenomeWideAssociation, GenomicVariation, Preprocessing
RoxygenNote: 7.3.2
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
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
Config/testthat/edition: 3
VignetteBuilder: knitr
Config/pak/sysreqs: make libbz2-dev libicu-dev liblzma-dev libpng-dev
        libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-11-06 18:53:48 UTC
RemoteUrl: https://github.com/bioc/MungeSumstats
RemoteRef: HEAD
RemoteSha: d2204cef0e1dd6e16bfaac9b0a5844d57ada207f
NeedsCompilation: no
Packaged: 2025-11-10 03:07:51 UTC; root
Author: Alan Murphy [aut, cre] (ORCID: <https://orcid.org/0000-0002-2487-8753>),
  Brian Schilder [aut, ctb] (ORCID:
    <https://orcid.org/0000-0001-5949-2191>),
  Nathan Skene [aut] (ORCID: <https://orcid.org/0000-0002-6807-3180>)
Maintainer: Alan Murphy <alanmurph94@hotmail.com>
Built: R 4.6.0; ; 2025-11-10 03:57:55 UTC; windows
