Gordon Smyth. Maintainer, author.
Lizhong Chen. Author.
Yifang Hu. Contributor.
Peter Dunn. Contributor.
Belinda Phipson. Contributor.
Yunshun Chen. Contributor.
Chen Y, Chen L, Lun ATL, Baldoni PL, Smyth GK (2025). edgeR v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets. Nucleic Acids Research 53(2), gkaf018. (expectedDeviance function)
@Article{,
author = {Yunshun Chen and Lizhong Chen and Aaron T L Lun and Pedro Baldoni and Gordon K Smyth},
title = {{edgeR} v4: powerful differential analysis of sequencing data with expanded functionality and improved support for small counts and larger datasets},
year = {2025},
journal = {Nucleic Acids Research},
volume = {53},
number = {2},
pages = {gkaf018},
doi = {10.1093/nar/gkaf018},
}
Dunn PK, Smyth GK (1996). Randomized quantile residuals. J. Comput. Graph. Statist., 5, 236-244. (qresid functions)
@Article{,
author = {Peter K Dunn and Gordon K Smyth},
year = {1996},
title = {Randomized quantile residuals},
journal = {J. Comput. Graph. Statist},
volume = {5},
pages = {236-244},
}
Giner G, Smyth GK (2016). statmod: probability calculations for the inverse Gaussian distribution. R Journal 8(1), 339-351. (pinvgauss, qinvgauss, dinvguass and rinvgauss functions)
@Article{,
author = {Goknur Giner and Gordon K Smyth},
year = {2016},
title = {statmod: probability calculations for the inverse Gaussian distribution},
journal = {R Journal},
volume = {8},
number = {1},
pages = {339-351},
}
Hu Y, Smyth GK (2009). ELDA: Extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays. Journal of Immunological Methods 347, 70-78. (elda and limdil functions)
@Article{,
author = {Yifang Hu and Gordon K Smyth},
year = {2009},
title = {ELDA: extreme limiting dilution analysis for comparing depleted and enriched populations in stem cell and other assays},
journal = {Journal of Immunological Methods},
volume = {347},
number = {1},
pages = {70-78},
}
Phipson B, Smyth GK (2010). Permutation p-values should never be zero: calculating exact p-values when permutations are randomly drawn. Statistical Applications in Genetics and Molecular Biology, Volume 9, Issue 1, Article 39. (permp function)
@Article{,
author = {Belinda Phipson and Gordon K Smyth},
year = {2010},
title = {Permutation p-values should never be zero: calculating exact p-values when permutations are randomly drawn},
journal = {Statistical Applications in Genetics and Molecular Biology},
volume = {9},
number = {1},
pages = {Article 39},
}
Smyth GK (1998). Numerical integration. In: Encyclopedia of Biostatistics, P. Armitage and T. Colton (eds.), Wiley, London, pp. 3088-3095. (gauss.quad and gauss.quad.prob functions)
@Article{,
author = {Gordon K Smyth},
title = {Numerical integration},
journal = {Encyclopedia of Biostatistics},
year = {2005},
publisher = {John Wiley and Sons, Ltd},
pages = {3088-3095},
}
Smyth GK (1998). Optimization and nonlinear equations. In: Encyclopedia of Biostatistics, P. Armitage and T. Colton (eds.), Wiley, London, pp. 3174-3180. (glmgam.fit, glmnb.fit and fitNBP functions)
@Article{,
author = {Gordon K Smyth},
title = {Optimization and nonlinear equations},
journal = {Encyclopedia of Biostatistics},
year = {2005},
publisher = {John Wiley and Sons},
pages = {3088-3095},
}
Smyth GK (2002). An efficient algorithm for REML in heteroscedastic regression. Journal of Computational and Graphical Statistics 11, 836-847. (remlscore, randomizedBlock, and mixedModel2 functions)
@Article{,
author = {Gordon K Smyth},
year = {2002},
title = {An efficient algorithm for REML in heteroscedastic regression},
journal = {Journal of Computational and Graphical Statistics},
volume = {11},
pages = {836-847},
}