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.

Author | Olena Yavorska <yavorsko@tcd.ie> |

Date of publication | 2016-09-30 23:09:43 |

Maintainer | Stephen Burgess <sb452@medschl.cam.ac.uk> |

License | GPL-2 | GPL-3 |

Version | 0.2.0 |

**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

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
Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.