Package: mrlocus 0.0.26
Michael Love
mrlocus: MRLocus - Mendelian Randomization per locus
Mendelian Randomization per locus, leveraging eQTL and GWAS summary statistics, for estimation of gene-to-trait effect size and dispersion.
Authors:
mrlocus_0.0.26.tar.gz
mrlocus_0.0.26.zip(r-4.5)mrlocus_0.0.26.zip(r-4.4)mrlocus_0.0.26.zip(r-4.3)
mrlocus_0.0.26.tgz(r-4.4-x86_64)mrlocus_0.0.26.tgz(r-4.4-arm64)mrlocus_0.0.26.tgz(r-4.3-x86_64)mrlocus_0.0.26.tgz(r-4.3-arm64)
mrlocus_0.0.26.tar.gz(r-4.5-noble)mrlocus_0.0.26.tar.gz(r-4.4-noble)
mrlocus.pdf |mrlocus.html✨
mrlocus/json (API)
NEWS
| # Install 'mrlocus' in R: |
| install.packages('mrlocus', repos = c('https://mrcieu.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/thelovelab/mrlocus/issues
Last updated 1 years agofrom:d3dd5068a1. Checks:OK: 1 NOTE: 8. Indexed: no.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 26 2024 |
| R-4.5-win-x86_64 | NOTE | Sep 26 2024 |
| R-4.5-linux-x86_64 | NOTE | Sep 26 2024 |
| R-4.4-win-x86_64 | NOTE | Sep 26 2024 |
| R-4.4-mac-x86_64 | NOTE | Sep 26 2024 |
| R-4.4-mac-aarch64 | NOTE | Sep 26 2024 |
| R-4.3-win-x86_64 | NOTE | Sep 26 2024 |
| R-4.3-mac-x86_64 | NOTE | Sep 26 2024 |
| R-4.3-mac-aarch64 | NOTE | Sep 26 2024 |
Exports:collapseHighCorSNPsextractForSlopefitBetaColocfitSlopeflipAllelesAndGathermakeSimDataForMrlocusnormalizedAllelicSpreadplotInitEstimatesplotMrlocuspriorChecktrimClusters
Dependencies:abindbackportsBHcallrcheckmateclicolorspacedescdistributionalfansifarvergenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellnlmenumDerivpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelrlangrstanrstantoolsscalesStanHeaderstensorAtibbleutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| MRLocus - see this page for typical order of functions | mrlocus-package mrlocus |
| Collapse high correlation SNPs | collapseHighCorSNPs |
| Extract SNPs from colocalization for slope fitting | extractForSlope |
| Fit the colocalization model per signal cluster | fitBetaColoc |
| Fit the mediation slope model: effect of A on B | fitSlope |
| Flip alleles and gather results into lists | flipAllelesAndGather |
| Make simple simulated summary data | makeSimDataForMrlocus |
| Estimate the normalized allelic spread | normalizedAllelicSpread |
| Plot initial estimates over signal clusters | plotInitEstimates |
| Plot estimates from MRLocus slope fitting step | plotMrlocus |
| Basic prior checks on MRLocus slope fit | priorCheck |
| Trim signal clusters based on pairwise r2 | trimClusters |
