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A memory-efficient, visualize-enhanced, parallel-accelerated Genome-Wide Association Study (GWAS) tool. It can (1) effectively process large data, (2) rapidly evaluate population structure, (3) efficiently estimate variance components several algorithms, (4) implement parallel-accelerated association tests of markers three methods, (5) globally efficient design on GWAS process computing, (6) enhance visualization of related information. 'rMVP' contains three models GLM (Alkes Price (2006) <doi:10.1038/ng1847>), MLM (Jianming Yu (2006) <doi:10.1038/ng1702>) and FarmCPU (Xiaolei Liu (2016) <doi:10.1371/journal.pgen.1005767>); variance components estimation methods EMMAX (Hyunmin Kang (2008) <doi:10.1534/genetics.107.080101>;), FaSTLMM (method: Christoph Lippert (2011) <doi:10.1038/nmeth.1681>, R implementation from 'GAPIT2': You Tang and Xiaolei Liu (2016) <doi:10.1371/journal.pone.0107684> and 'SUPER': Qishan Wang and Feng Tian (2014) <doi:10.1371/journal.pone.0107684>), and HE regression (Xiang Zhou (2017) <doi:10.1214/17-AOAS1052>).
| Version: | 1.0.8 |
| Depends: | R (≥ 3.3) |
| Imports: | utils, stats, methods, graphics, grDevices, MASS, bigmemory |
| LinkingTo: | Rcpp, RcppArmadillo, RcppEigen, RcppProgress, BH, bigmemory |
| Suggests: | knitr, testthat, rmarkdown |
| Published: | 2023-11-27 |
| Author: | Lilin Yin [aut], Haohao Zhang [aut], Zhenshuang Tang [aut], Jingya Xu [aut], Dong Yin [aut], Zhiwu Zhang [aut], Xiaohui Yuan [aut], Mengjin Zhu [aut], Shuhong Zhao [aut], Xinyun Li [aut], Qishan Wang [ctb], Feng Tian [ctb], Hyunmin Kang [ctb], Xiang Zhou [ctb], Xiaolei Liu [cre, aut, cph] |
| Maintainer: | Xiaolei Liu <xll198708 at gmail.com> |
| BugReports: | https://github.com/xiaolei-lab/rMVP/issues |
| License: | Apache License 2.0 |
| URL: | https://github.com/xiaolei-lab/rMVP |
| NeedsCompilation: | yes |
| Materials: | ChangeLog |
| In views: | Agriculture |
| CRAN checks: | rMVP results |
| Reference manual: | rMVP.pdf |
| Package source: | rMVP_1.0.8.tar.gz |
| Windows binaries: | r-devel: rMVP_1.0.8.zip, r-release: rMVP_1.0.8.zip, r-oldrel: rMVP_1.0.8.zip |
| macOS binaries: | r-release (arm64): rMVP_1.0.8.tgz, r-oldrel (arm64): rMVP_1.0.8.tgz, r-release (x86_64): rMVP_1.0.8.tgz, r-oldrel (x86_64): rMVP_1.0.8.tgz |
| Old sources: | rMVP archive |
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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.
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