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bibentry(
bibtype = "article",
author = c(person("Yunshun","Chen"),
person("Lizhong","Chen"),
person(c("Aaron","T","L"),"Lun"),
person("Pedro","Baldoni"),
person(c("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",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = c(person(c("Peter","K"),"Dunn"),
person(c("Gordon","K"),"Smyth")),
year = 1996,
title = "Randomized quantile residuals",
journal = "J. Comput. Graph. Statist",
volume = 5,
pages = "236-244",
textVersion = "Dunn PK, Smyth GK (1996). Randomized quantile residuals. J. Comput. Graph. Statist., 5, 236-244. (qresid functions)"
)
bibentry(
bibtype = "article",
author = c(person("Goknur","Giner"),
person(c("Gordon","K"),"Smyth")),
year = 2016,
title = "statmod: probability calculations for the inverse Gaussian distribution",
journal = "R Journal",
volume = 8,
number = 1,
pages = "339-351",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = c(person("Yifang","Hu"),
person(c("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",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = c(person("Belinda","Phipson"),
person(c("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",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = person(c("Gordon","K"),"Smyth"),
title = "Numerical integration",
journal = "Encyclopedia of Biostatistics",
year = 2005,
publisher = "John Wiley and Sons, Ltd",
pages = "3088-3095",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = person(c("Gordon","K"),"Smyth"),
title = "Optimization and nonlinear equations",
journal = "Encyclopedia of Biostatistics",
year = 2005,
publisher = "John Wiley and Sons",
pages = "3088-3095",
textVersion = "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)"
)
bibentry(
bibtype = "article",
author = person(c("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",
textVersion = "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)"
)
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