Package: MRZero 0.2.0

MRZero: Diet Mendelian Randomization

Encodes several methods for performing Mendelian randomization analyses with summarized data. Similar to the 'MendelianRandomization' package, but with fewer bells and whistles, and less frequent updates. As described in Yavorska (2017) <doi:10.1093/ije/dyx034> and Broadbent (2020) <doi:10.12688/wellcomeopenres.16374.2>.

Authors:Stephen Burgess [aut, cre], Olena Yavorska [aut], James Staley [ctb], Fernando Hartwig [ctb], Jim Broadbent [ctb], Christopher Foley [ctb], Andrew Grant [ctb], Amy Mason [ctb], Ting Ye [ctb], Haoran Xue [ctb], Zhaotong Lin [ctb], Siqi Xu [ctb], Ashish Patel [ctb], Hyunseung Kang [ctb], Sheng Wang [ctb], Ville Karhunen [ctb]

MRZero_0.2.0.tar.gz
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MRZero_0.2.0.tgz(r-4.4-any)MRZero_0.2.0.tgz(r-4.3-any)
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MRZero.pdf |MRZero.html✨
MRZero/json (API)
NEWS

# Install 'MRZero' in R:

install.packages('MRZero', repos = c('https://sb452.r-universe.dev', 'https://cloud.r-project.org'))

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

66 exports 0.09 score 82 dependencies 200 downloads

Last updated 5 months agofrom:cae322f744. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 12 2024
R-4.5-win	OK	Sep 12 2024
R-4.5-linux	OK	Sep 12 2024
R-4.4-win	OK	Sep 12 2024
R-4.4-mac	OK	Sep 12 2024
R-4.3-win	OK	Sep 12 2024
R-4.3-mac	OK	Sep 12 2024

Exports:BF_dist calc.rho calcium calciumse chdlodds chdloddsse ci_normal ci_t cML_estimate cML_estimate_random cML_SdTheta condFstat coursedata decimals egger.bounds fastgluc fastglucse hdlc hdlcse ldlc ldlcse lipid_eaf lipid_effect lipid_other loglikelihood loglikelihoodcorrel loglikelihoodrhocorrel mbe_boot mbe_est mr_allmethods mr_clr mr_cML mr_conmix mr_divw mr_egger mr_forest mr_funnel mr_input mr_ivw mr_lasso mr_loo mr_maxlik mr_mbe mr_median mr_mvegger mr_mvgmm mr_mvinput mr_mvivw mr_mvivwme mr_mvlasso mr_mvmedian mr_mvpcgmm mr_pcgmm mr_pivw mr_plot mv_norm penalised.weights penalised.weights.delta r.weights r.weights.delta simpleCap trig trigse values weighted.median weighted.median.boot.se

Dependencies:askpass base64enc bslib cachem cli codetools colorspace cpp11 crosstalk curl data.table DEoptimR digest dplyr evaluate fansi farver fastmap fontawesome foreach fs generics ggplot2 glmnet glue gtable highr htmltools htmlwidgets httr isoband iterators jquerylib jsonlite knitr labeling later lattice lazyeval lifecycle magrittr MASS Matrix MatrixModels memoise mgcv mime munsell nlme openssl pillar pkgconfig plotly promises purrr quantreg R6 rappdirs RColorBrewer Rcpp RcppEigen rlang rmarkdown robustbase sass scales shape SparseM stringi stringr survival sys tibble tidyr tidyselect tinytex utf8 vctrs viridisLite withr xfun yaml

Help page	Topics
Data on effect of calcium on fasting glucose (correlated variants)	calc.rho calcium calciumse fastgluc fastglucse
CLR Class	CLR-class
Estimate with Regular Likelihood	cML_estimate
Estimate with Regular Likelihood Using Multiple Random Start Points	cML_estimate_random
Standard Error of Estimated Theta	cML_SdTheta
DIVW Class	DIVW-class
Egger Class	Egger-class
IVW Class	IVW-class
Data on lipid effects on coronary artery disease (uncorrelated variants)	chdlodds chdloddsse hdlc hdlcse ldlc ldlcse lipid_eaf lipid_effect lipid_other trig trigse
MaxLik Class	MaxLik-class
Mendelian randomization estimation using all methods	mr_allmethods mr_allmethods,MRInput-method
Conditional likelihood ratio (CLR) method	mr_clr mr_clr,MRInput-method
Constrained maximum likelihood (cML) method	mr_cML mr_cML,MRInput-method
Contamination mixture method	mr_conmix mr_conmix,MRInput-method
Debiased inverse-variance weighted method	mr_divw mr_divw,MRInput-method
MR-Egger method	mr_egger mr_egger,MRInput-method
Draw a forest plot of causal estimates	mr_forest mr_forest,MRInput-method
Draw a funnel plot of variant-specific estimates	mr_funnel mr_funnel,MRInput-method
Inputting and formatting data for use in causal estimation	mr_input
Inverse-variance weighted method	mr_ivw mr_ivw,MRInput-method
MR-Lasso method	mr_lasso mr_lasso,MRInput-method
Leave-one-out estimates	mr_loo mr_loo,MRInput-method
Maximum-likelihood method	mr_maxlik mr_maxlik,MRInput-method
Mode-based method of Hartwig	mr_mbe mr_mbe,MRInput-method
Median-based method	mr_median mr_median,MRInput-method
Multivariable MR-Egger method	mr_mvegger mr_mvegger,MRMVInput-method
Multivariable generalized method of moments (GMM) method	mr_mvgmm mr_mvgmm,MRMVInput-method
Inputting and formatting data for use in causal estimation	mr_mvinput
Multivariable inverse-variance weighted method	mr_mvivw mr_mvivw,MRMVInput-method
Multivariable inverse-variance weighted method with measurement error	mr_mvivwme mr_mvivwme,MRMVInput-method
Multivariable MR-Lasso method	mr_mvlasso mr_mvlasso,MRMVInput-method
Multivariable median-based method	mr_mvmedian mr_mvmedian,MRMVInput-method
Multivariable principal components generalized method of moments (PC-GMM) method	mr_mvpcgmm mr_mvpcgmm,MRMVInput-method
Univariable principal components generalized method of moments (PC-GMM) method	mr_pcgmm mr_pcgmm,MRInput-method
Penalized inverse-variance weighted method	mr_pivw mr_pivw,MRInput-method
Draw a scatter plot of the genetic associations and/or causal estimates	mr_plot mr_plot,MRAll-method mr_plot,MRInput-method mr_plot,MRMVInput-method
MRAll Class	MRAll-class
MRcML Class	MRcML-class
MRConMix Class	MRConMix-class
MRHetPen Class	MRHetPen-class
MRInput Class	MRInput-class
MRLasso class	MRLasso-class
MRMBE Class	MRMBE-class
MRMVInput Class	MRMVInput-class
MVEgger Class	MVEgger-class
MVGMM Class	MVGMM-class
MVIVW Class	MVIVW-class
MVIVWME Class	MVIVWME-class
MRMVLasso class	MVLasso-class
MRMVMedian class	MVMedian-class
MVMRcML Class	MVMRcML-class
MVPCGMM Class	MVPCGMM-class
PCGMM Class	PCGMM-class
PIVW Class	PIVW-class
WeightedMedian Class	WeightedMedian-class

Package: MRZero 0.2.0

MRZero: Diet Mendelian Randomization

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