README.md

In kbroman/lmmlite: Simple LMM Fitter for QTL Mapping

R/lmmlite - R port of pylmm

Karl Broman (following the code in Nick Furlotte's pylmm)

In order to better understand pylmm, for linear mixed models for genome-wide association studies (GWAS), I wrote an R version of the algorithm.

Vignettes

• User guide [source]

• Results compared to pylmm (and also the R package regress). [source]

• Performance compared to pylmm. [source]

Installation

You can install R/lmmlite from GitHub.

You first need to install the remotes pakcage.

install.packages("remotes")

Then use install_github() to install R/lmmlite.

library(remotes)
install_github("kbroman/lmmlite")

The Rcpp and RcppEigen packages will also be installed.

License

R/lmmlite is released under the GNU Affero GPL.

The code was developed following study of Nick Furlotte's pylmm code.

kbroman/lmmlite documentation built on May 10, 2023, 6:05 p.m.