Package: MRPATH 1.0

Daniel

MRPATH: R Package for MR-PATH

This package implements methods for fitting the MR-PATH model.

Authors:Daniel Iong

MRPATH_1.0.tar.gz
MRPATH_1.0.zip(r-4.5)MRPATH_1.0.zip(r-4.4)MRPATH_1.0.zip(r-4.3)
MRPATH_1.0.tgz(r-4.4-x86_64)MRPATH_1.0.tgz(r-4.4-arm64)MRPATH_1.0.tgz(r-4.3-x86_64)MRPATH_1.0.tgz(r-4.3-arm64)
MRPATH_1.0.tar.gz(r-4.5-noble)MRPATH_1.0.tar.gz(r-4.4-noble)
MRPATH_1.0.tgz(r-4.4-emscripten)MRPATH_1.0.tgz(r-4.3-emscripten)
MRPATH.pdf |MRPATH.html✨
MRPATH/json (API)

# Install 'MRPATH' in R:

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

Bug tracker:https://github.com/remlapmot/mrpath/issues

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

Datasets:

bmi_t2d - Effect of Body Mass Index
hdl_chd - Effect of HDL Cholesterol

On CRAN:

1.70 score 1 scripts 15 exports 77 dependencies

Last updated 9 months agofrom:cbb7958091 (on suggestions). Checks:OK: 1 WARNING: 8. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Oct 31 2024
R-4.5-win-x86_64	WARNING	Oct 31 2024
R-4.5-linux-x86_64	WARNING	Oct 31 2024
R-4.4-win-x86_64	WARNING	Oct 31 2024
R-4.4-mac-x86_64	WARNING	Oct 31 2024
R-4.4-mac-aarch64	WARNING	Oct 31 2024
R-4.3-win-x86_64	WARNING	Oct 31 2024
R-4.3-mac-x86_64	WARNING	Oct 31 2024
R-4.3-mac-aarch64	WARNING	Oct 31 2024

Exports:computeClusterMembProb computeQ getImportanceSamples loo.cv MR_PATH MR_PATHalt MREM.plotParamTraj MREMalt.scatterplot MRPATH_barplot MRPATH_optimizeInitVals MRPATH_scatterplot MRPATH_selectModel sampleBetas selectModel selectModel_stan

Dependencies:askpass base64enc bslib cachem cli colorspace cowplot cpp11 crosstalk curl data.table digest dplyr evaluate fansi farver fastmap fontawesome fs generics ggplot2 glue gtable highr htmltools htmlwidgets httr isoband jquerylib jsonlite knitr labeling later lattice lazyeval lifecycle magrittr MASS Matrix memoise mgcv mime munsell nlme openssl pillar pkgconfig plotly plyr promises purrr R6 rappdirs rbibutils RColorBrewer Rcpp RcppArmadillo RcppDist Rdpack reshape2 rlang rmarkdown sass scales stringi stringr sys tibble tidyr tidyselect tinytex utf8 vctrs viridisLite withr xfun yaml

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
MR-PATH: A Latent Mixture for Heterogenous Causal Mechanisms in Mendelian Randomization	MRPATH-package MRPATH
Effect of Body Mass Index (BMI) on Type-2 Diabetes (T2D)	bmi_t2d
Cluster membership probabilities in MR-PATH	computeClusterMembProb
Importance Sampling of SNP-specific latent variables in MR-PATH	getImportanceSamples
Effect of HDL Cholesterol (HDL-C) on Coronary Heart Disease (CHD)	hdl_chd
MR-PATH Model Fitting	MR_PATH
MR-PATH Bar Plot	MRPATH_barplot
MR-PATH Initial Value Optimizer	MRPATH_optimizeInitVals
MR-PATH Scatter Plot	MRPATH_scatterplot
Model selection for MR-PATH model using a modified BIC criterion.	MRPATH_selectModel
Probabilistic inference for SNP-specific causal effects in MR-PATH	sampleBetas

Usage by other packages (reverse dependencies)