rMVP
Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS Tool
Dong Yin, Zhiwu Zhang, Zhenshuang Tang, Xinyun Li, Shuhong Zhao, Mengjin Zhu, Haohao Zhang, Jingya Xu, Xiaolei Liu, Xiaohui Yuan, Lilin Yin
Last update: 27 November 2023
Copyright license: Apache License, Version 2.0
Software version identifier: 1.0.6, 0.99.15, 0.99.16, 0.99.17, 0.99.18, 1.0.0, 1.0.3, 1.0.4, 1.0.5, 1.0.7, 1.0.8
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>).
- Principal components analysis corrects for stratification in genome-wide association studies
- A unified mixed-model method for association mapping that accounts for multiple levels of relatedness
- Iterative Usage of Fixed and Random Effect Models for Powerful and Efficient Genome-Wide Association Studies
- Efficient Control of Population Structure in Model Organism Association Mapping
- FaST linear mixed models for genome-wide association studies
- A SUPER Powerful Method for Genome Wide Association Study
- A unified framework for variance component estimation with summary statistics in genome-wide association studies
