Chen Y, Chen L, Lun ATL, Baldoni P, 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.doi:10.1093/nar/gkaf018.
Dunn PK, Smyth GK (1996).“Randomized quantile residuals.”J. Comput. Graph. Statist,5, 236-244.
Giner G, Smyth GK (2016).“statmod: probability calculations for the inverse Gaussian distribution.”R Journal,8(1), 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(1), 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,9(1), Article 39.
Smyth GK (2005).“Numerical integration.”Encyclopedia of Biostatistics, 3088-3095.
Smyth GK (2005).“Optimization and nonlinear equations.”Encyclopedia of Biostatistics, 3088-3095.
Smyth GK (2002).“An efficient algorithm for REML in heteroscedastic regression.”Journal of Computational and Graphical Statistics,11, 836-847.
Corresponding BibTeX entries:
@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}, } @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}, } @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}, } @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}, } @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}, } @Article{, author = {Gordon K Smyth}, title = {Numerical integration}, journal = {Encyclopedia of Biostatistics}, year = {2005}, publisher = {John Wiley and Sons, Ltd}, pages = {3088-3095}, } @Article{, author = {Gordon K Smyth}, title = {Optimization and nonlinear equations}, journal = {Encyclopedia of Biostatistics}, year = {2005}, publisher = {John Wiley and Sons}, pages = {3088-3095}, } @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}, }