MendelianRandomization: Mendelian Randomization Package

Encodes several methods for performing Mendelian randomization analyses with summarized data. Summarized data on genetic associations with the exposure and with the outcome can be obtained from large consortia. These data can be used for obtaining causal estimates using instrumental variable methods.

AuthorOlena Yavorska <yavorsko@tcd.ie>
Date of publication2016-09-30 23:09:43
MaintainerStephen Burgess <sb452@medschl.cam.ac.uk>
LicenseGPL-2 | GPL-3
Version0.2.0

View on CRAN

Man pages

calcium: Data on effect of calcium on fasting glucose (correlated...

ci_normal: Calculate confidence intervals using the normal distribution

ci_t: Calculate confidence intervals using the t-distribution

coursedata: Course data

decimals: Produce nicely rounded numbers

egger.bounds: Calculates confidence intervals for the MR-Egger method

Egger-class: Egger Class

extract.pheno.csv: Extract summarized data from a PhenoScanner .csv file

getter: Applies method $ to different classes

IVW-class: IVW Class

ldlc: Data on lipid effects on coronary artery disease...

loglikelihood: Calculates log-likelihood with uncorrelated variants in...

loglikelihoodcorrel: Calculates log-likelihood with correlated variants in...

loglikelihoodrhocorrel: Calculates log-likelihood with correlation from sample...

MaxLik-class: MaxLik Class

MRAll-class: MRAll Class

mr_allmethods: Mendelian randomization estimation using all methods

mr_egger: MR-Egger method

mr_input: Inputting and formatting data for use in causal estimation

MRInput-class: MRInput Class

mr_ivw: Inverse-variance weighted method

mr_maxlik: Maximum-likelihood method

mr_median: Median-based method

mr_plot: Draw a scatter plot of the genetic associations and/or causal...

penalised.weights: Calculates p-values for penalization of weights

penalised.weights.delta: Calculates p-values for penalization of weights with...

r.weights: Calculates p-values for penalization of weights

r.weights.delta: Calculates p-values for penalization of weights with...

simpleCap: Capitalize a word

values: Applies method values() to different output classes

weighted.median: Weighted median function

weighted.median.boot.se: Weighted median standard error function

WeightedMedian-class: WeightedMedian Class

Files in this package

MendelianRandomization
MendelianRandomization/inst
MendelianRandomization/inst/extdata
MendelianRandomization/inst/extdata/vitD_snps_PhenoScanner_proxies.csv
MendelianRandomization/inst/extdata/vitD_snps_PhenoScanner.csv
MendelianRandomization/inst/doc
MendelianRandomization/inst/doc/Vignette_MR.R
MendelianRandomization/inst/doc/Vignette_MR.pdf
MendelianRandomization/inst/doc/Vignette_MR.Rmd
MendelianRandomization/NAMESPACE
MendelianRandomization/NEWS
MendelianRandomization/R
MendelianRandomization/R/AllClasses.R MendelianRandomization/R/AllGenerics.R MendelianRandomization/R/show-methods.R MendelianRandomization/R/values-methods.R MendelianRandomization/R/mr_allmethods-methods.R MendelianRandomization/R/mr_ivw-methods.R MendelianRandomization/R/AllData.R MendelianRandomization/R/mr_median-methods.R MendelianRandomization/R/mr_maxlik-methods.R MendelianRandomization/R/extract.pheno.csv-function.R MendelianRandomization/R/getter-methods.R MendelianRandomization/R/mr_plot-methods.R MendelianRandomization/R/1Data.R MendelianRandomization/R/ExtraFunctions.R MendelianRandomization/R/mr_egger-methods.R MendelianRandomization/R/new-methods.R
MendelianRandomization/vignettes
MendelianRandomization/vignettes/Vignette_MR.html
MendelianRandomization/vignettes/Vignette_MR.Rmd
MendelianRandomization/MD5
MendelianRandomization/build
MendelianRandomization/build/vignette.rds
MendelianRandomization/DESCRIPTION
MendelianRandomization/man
MendelianRandomization/man/mr_plot.Rd MendelianRandomization/man/penalised.weights.delta.Rd MendelianRandomization/man/ci_normal.Rd MendelianRandomization/man/simpleCap.Rd MendelianRandomization/man/loglikelihoodrhocorrel.Rd MendelianRandomization/man/mr_egger.Rd MendelianRandomization/man/loglikelihood.Rd MendelianRandomization/man/mr_maxlik.Rd MendelianRandomization/man/extract.pheno.csv.Rd MendelianRandomization/man/values.Rd MendelianRandomization/man/getter.Rd MendelianRandomization/man/mr_input.Rd MendelianRandomization/man/ldlc.Rd MendelianRandomization/man/r.weights.delta.Rd MendelianRandomization/man/coursedata.Rd MendelianRandomization/man/Egger-class.Rd MendelianRandomization/man/ci_t.Rd MendelianRandomization/man/penalised.weights.Rd MendelianRandomization/man/MaxLik-class.Rd MendelianRandomization/man/r.weights.Rd MendelianRandomization/man/MRInput-class.Rd MendelianRandomization/man/mr_allmethods.Rd MendelianRandomization/man/decimals.Rd MendelianRandomization/man/calcium.Rd MendelianRandomization/man/loglikelihoodcorrel.Rd MendelianRandomization/man/mr_median.Rd MendelianRandomization/man/weighted.median.boot.se.Rd MendelianRandomization/man/IVW-class.Rd MendelianRandomization/man/egger.bounds.Rd MendelianRandomization/man/WeightedMedian-class.Rd MendelianRandomization/man/mr_ivw.Rd MendelianRandomization/man/weighted.median.Rd MendelianRandomization/man/MRAll-class.Rd

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