Package: MRAPSS 0.0.0.9000

Xianghong HU

MRAPSS: Mendelian Randomization Accounting for Pleiotropy and Sample Structure

Implements the MR-APSS approach to test for the causal effects between an exposure and an outcome disease. MR-APSS is a unified approach to Mendelian Randomization accounting for polygenicity, pleiotropy and sample structure using genome-wide summary statistics. Specifically, MR-APSS uses a background-foreground model to characterize both SNP-exposure effects and SNP-outcome effects estimates, where the background model accounts for confounding from genetic correlation and sample structure and the foreground model captures the valid signal for causal inference.

Authors:Xianghong HU [aut, cre]

MRAPSS_0.0.0.9000.tar.gz
MRAPSS_0.0.0.9000.zip(r-4.7-any)MRAPSS_0.0.0.9000.zip(r-4.6-any)MRAPSS_0.0.0.9000.zip(r-4.5-any)
MRAPSS_0.0.0.9000.tgz(r-4.6-any)MRAPSS_0.0.0.9000.tgz(r-4.5-any)
MRAPSS_0.0.0.9000.tar.gz(r-4.7-any)MRAPSS_0.0.0.9000.tar.gz(r-4.6-any)
MRAPSS_0.0.0.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
MRAPSS/json (API)

# Install 'MRAPSS' in R:
install.packages('MRAPSS', repos = c('https://mrcieu.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/remlapmot/mr-apss/issues

Datasets:
  • C - Estimated C matrix for the BMI-T2D example
  • MHC.SNPs - SNPs in the MHC region
  • MRdat - Harmonized instrument data for the BMI-T2D example
  • Omega - Estimated Omega matrix for the BMI-T2D example
  • w_hm3.snplist - HapMap 3 SNP list

On CRAN:

Conda:

2.54 score 35 scripts 8 exports 48 dependencies

Last updated from:ac1e457511 (on suggestions). Checks:9 OK. Indexed: no.

TargetResultTimeFilesSyslog
linux-develOK242
source / vignettesOK242
linux-releaseOK238
macos-releaseOK196
macos-oldrelOK247
windows-develOK188
windows-releaseOK191
windows-oldrelOK221
wasm-releaseOK140

Exports:clumpest_parasformat_dataMR_EM_fix_rf_funcMR_fix_rfMRAPSSMRplotsensitivity

Dependencies:askpassbitbit64clicliprcpp11crayoncurldata.tabledplyrexpmfarvergenericsggplot2gluegtablehmshttrieugwasrisobandjsonlitelabelinglatticelifecyclemagrittrMatrixmimemvtnormopensslpillarpkgconfigprettyunitsprogressR6RColorBrewerreadrrlangS7scalessystibbletidyselecttzdbutf8vctrsviridisLitevroomwithr