Package: gwasglue 0.0.0.9000

Gibran Hemani

gwasglue: GWAS summary data sources connected to analytical tools

Many tools exist that use GWAS summary data for colocalisation, fine mapping, Mendelian randomization, visualisation, etc. This package is a conduit that connects R packages that can retrieve GWAS summary data to various tools for analysing those data.

Authors:Gibran Hemani [aut, cre]

gwasglue_0.0.0.9000.tar.gz
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gwasglue.pdf |gwasglue.html
gwasglue/json (API)
NEWS

# Install 'gwasglue' in R:
install.packages('gwasglue', repos = c('https://mrcieu.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mrcieu/gwasglue/issues

On CRAN:

Conda:

4.79 score 134 stars 91 scripts 23 exports 196 dependencies

Last updated 3 years agofrom:c2d5660eed. Checks:8 ERROR. Indexed: yes.

TargetResultLatest binary
Doc / VignettesFAILMar 24 2025
R-4.5-winERRORMar 24 2025
R-4.5-macERRORMar 24 2025
R-4.5-linuxERRORMar 24 2025
R-4.4-winERRORMar 24 2025
R-4.4-macERRORMar 24 2025
R-4.4-linuxERRORMar 24 2025
R-4.3-winERRORDec 24 2024

Exports:%>%clump_gwasvcfcojo_condcojo_sumstat_filecoloc_to_gassocplotgwasvcf_to_colocgwasvcf_to_finemaprgwasvcf_to_TwoSampleMRharmoniseharmonise_against_refieugwasr_to_colocieugwasr_to_finemaprieugwasr_to_gassocplotieugwasr_to_TwoSampleMRis_forward_strandmake_TwoSampleMR_datmap_variants_to_regionspwcocoread_gwasread_referenceset_bc4_filessusieR_pipelinewrite_out

Dependencies:abindAnnotationDbiarrangementsaskpassbase64encBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobbootbrioBSgenomebslibcachemcallrclicliprcodetoolscolorspaceCompQuadFormcowplotcpp11crayoncrosstalkcrulcurldata.tableDBIDelayedArrayDEoptimRdescdiffobjdigestdplyrevaluatefansifarverfastmapfontawesomeforeachformatRfsfutile.loggerfutile.optionsgenericsgenetics.binaRiesGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2ggrepelglmnetgluegmpGPArotationgridExtragtablegwasglue2gwasvcfhighrhmshtmltoolshtmlwidgetshttpcodehttrieugwasrIRangesirlbaisobanditeratorsiterpcjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclelme4magrittrMASSmathjaxrMatrixMatrixGenericsMatrixModelsmatrixStatsmemoiseMendelianRandomizationmetametadatmetaformgcvmimeminqamixsqpmnormtmr.rapsMRMixMRPRESSOmunsellnlmenloptrnortestnumDerivopensslpbapplypillarpkgbuildpkgconfigpkgloadplogrplotlyplyrpngpraiseprettyunitsprocessxprogresspromisespspsychpurrrquantregR6RadialMRrappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRCurlRdpackreadrreformulasreshapereshape2restfulrRhtslibrjsonrlangrmarkdownrobustbaserootSolverprojrootRsamtoolsrsnpsRSQLitertracklayerS4ArraysS4VectorssassscalesshapesnowSparseArraySparseMstringistringrSummarizedExperimentsurvivalsusieRsystestthattibbletidyrtidyselecttinytextriebeardTwoSampleMRtzdbUCSC.utilsurltoolsutf8VariantAnnotationvctrsviridisLitevroomwaldowithrxfunXMLxml2XVectoryaml