Package: TwoSampleMR 0.6.5

Gibran Hemani

TwoSampleMR:Two Sample MR Functions and Interface to MR Base Database

A package for performing Mendelian randomization using GWAS summary data. It uses the IEU GWAS database <https://gwas.mrcieu.ac.uk/> to automatically obtain data, and a wide range of methods to run the analysis. You can use the MR-Base web app <https://www.mrbase.org/> to try out a limited range of the functionality in this package, but for any serious work we strongly recommend using this R package.

Authors:Gibran Hemani [aut, cre], Philip Haycock [aut], Jie Zheng [aut], Tom Gaunt [aut], Ben Elsworth [aut], Tom Palmer [aut]

TwoSampleMR_0.6.5.tar.gz
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TwoSampleMR.pdf |TwoSampleMR.html✨
TwoSampleMR/json (API)
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Peer review:

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

On CRAN:

113 exports 386 stars 6.85 score 112 dependencies 1 dependents

Last updated 5 days agofrom:2f0736eab8

Exports:%>%add_metadataadd_rsqallele_frequencyavailable_outcomesclump_datacombine_all_mrresultscombine_datacontingencyconvert_outcome_to_exposuredat_to_MRInputdat_to_RadialMRdefault_parametersdirectionality_testeffective_nenrichmentenrichment_method_listestimate_trait_sdextract_instrumentsextract_outcome_datafishers_combined_testforest_plotforest_plot_1_to_manyformat_1_to_manyformat_aries_mqtlformat_dataformat_gtex_eqtlformat_gwas_catalogformat_metab_qtlsformat_mr_resultsformat_proteomic_qtlsgenerate_odds_ratiosget_p_from_r2nget_population_allele_frequencyget_r_from_bsenget_r_from_lorget_r_from_pnget_seharmonise_dataharmonise_ld_datIsqld_matrixldsc_h2ldsc_rgmake_datmrmr_density_plotmr_egger_regressionmr_egger_regression_bootstrapmr_forest_plotmr_funnel_plotmr_heterogeneitymr_ivwmr_ivw_femr_ivw_mremr_ivw_radialmr_leaveoneoutmr_leaveoneout_plotmr_medianmr_meta_fixedmr_meta_fixed_simplemr_meta_randommr_method_listmr_modemr_moemr_penalised_weighted_medianmr_pleiotropy_testmr_rapsmr_reportmr_ruckermr_rucker_bootstrapmr_rucker_cooksdistancemr_rucker_jackknifemr_scatter_plotmr_signmr_simple_medianmr_simple_modemr_simple_mode_nomemr_singlesnpmr_steigermr_steiger2mr_two_sample_mlmr_uwrmr_wald_ratiomr_weighted_medianmr_weighted_modemr_weighted_mode_nomemr_wrappermv_basicmv_extract_exposuresmv_extract_exposures_localmv_harmonise_datamv_ivwmv_lasso_feature_selectionmv_multiplemv_residualmv_subsetpower_pruneread_exposure_dataread_outcome_datarun_mr_pressorun_mrmixsize.prunesort_1_to_manysplit_exposuresplit_outcomestandardise_unitssteiger_filteringsteiger_sensitivitysubset_on_methodtrimweighted_medianweighted_median_bootstrap

Dependencies:askpassbase64encbitbit64bootbslibcachemclicliprcodetoolscolorspaceCompQuadFormcowplotcpp11crayoncrosstalkcurldata.tabledigestdplyrevaluatefansifarverfastmapfontawesomeforeachfsgenericsggplot2glmnetglueGPArotationgridExtragtablehighrhmshtmltoolshtmlwidgetshttrieugwasrisobanditeratorsjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclelme4magrittrMASSmathjaxrMatrixmemoisemetametadatmetaformgcvmimeminqamnormtmr.rapsMRMixMRPRESSOmunsellnlmenloptrnortestnumDerivopensslpbapplypillarpkgconfigplotlyplyrprettyunitsprogresspromisespsychpurrrR6RadialMRrappdirsRColorBrewerRcppRcppEigenreadrreshape2rlangrmarkdownsassscalesshapestringistringrsurvivalsystibbletidyrtidyselecttinytextzdbutf8vctrsviridisLitevroomwithrxfunxml2yaml