Please cite the relevant papers for individual methods and the missMethyl Bioinformatics paper for the whole package. Maksimovic, J.,Gordon, L., and Oshlack, A. (2012). SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips. Genome Biology 13(6), R44 A BibTeX entry for LaTeX users is @Article{, author = {Jovana Maksimovic and Lavinia Gordon and Alicia Oshlack}, title = {SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips}, journal = {Genome Biology}, volume = {13}, number = {6}, pages = {R44}, year = {2012}, } Phipson, B., and Oshlack, A. (2014). DiffVar: A new method for detecting differential variability with application to methylation in cancer and aging. Genome Biology 15(9), 465. A BibTeX entry for LaTeX users is @Article{, author = {Belinda Phipson and Alicia Oshlack}, title = {DiffVar: A new method for detecting differential variability with application to methylation in cancer and aging}, journal = {Genome Biology}, volume = {15}, number = {9}, pages = {465}, year = {2014}, } Maksimovic, J., Gagnon-Bartsch, J.A., Speed, T.P., and Oshlack, A. (2015). Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data. Nucleic acids research, gkv526. A BibTeX entry for LaTeX users is @Article{, author = {Jovana Maksimovic and Johann A Gagnon-Bartsch and Terence P Speed and Alicia Oshlack}, title = {Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data}, journal = {Nucleic acids research}, pages = {gkv526}, year = {2015}, } Phipson, B., Maksimovic, J., and Oshlack, A. (2015). missMethyl: an R package for analysing methylation data from Illuminas HumanMethylation450 platform. Bioinformatics, btv560. A BibTeX entry for LaTeX users is @Article{, author = {Belinda Phipson and Jovana Maksimovic and Alicia Oshlack}, title = {missMethyl: an R package for analysing methylation data from Illuminas HumanMethylation450 platform}, journal = {Bioinformatics}, pages = {btv560}, year = {2015}, }