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smer: Sparse Marginal Epistasis Test

The Sparse Marginal Epistasis Test is a computationally efficient genetics method which detects statistical epistasis in complex traits; see Stamp et al. (2025, <doi:10.1101/2025.01.11.632557>) for details.

Version: 0.0.1
Depends: R (≥ 4.4.0)
Imports: dplyr, genio, logging, mvMAPIT, Rcpp, tidyr
LinkingTo: BH, Rcpp, RcppEigen, Rhdf5lib, testthat
Suggests: GenomicRanges, ggplot2, knitr, rmarkdown, testthat (≥ 3.0.0), xml2
Published: 2025-01-16
DOI: 10.32614/CRAN.package.smer
Author: Julian Stamp ORCID iD [cre, aut], Lorin Crawford ORCID iD [aut], sriramlab [cph] (Author of included mailman algorithm), Blue Brain Project/EPFL [cph] (Author of included HighFive library)
Maintainer: Julian Stamp <julian.d.stamp at gmail.com>
BugReports: https://github.com/lcrawlab/sme/issues
License: MIT + file LICENSE
URL: https://github.com/lcrawlab/sme, https://lcrawlab.github.io/sme/
NeedsCompilation: yes
SystemRequirements: GNU make
Materials: README NEWS
CRAN checks: smer results

Documentation:

Reference manual: smer.pdf
Vignettes: How To Use the Sparse Marginal Epistasis Test (source, R code)
Conditioning Epistasis Search on Open Chromatin (source, R code)
How To Cite Our Work (source, R code)
How To Create a Mask File (source, R code)
How To Optimize the Memory Requirements of SME (source, R code)
How To Simulate Traits (source, R code)

Downloads:

Package source: smer_0.0.1.tar.gz
Windows binaries: r-devel: smer_0.0.1.zip, r-release: not available, r-oldrel: not available
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available

Linking:

Please use the canonical form https://CRAN.R-project.org/package=smer to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.