Package: CytoMethIC Type: Package Title: DNA methylation-based machine learning models Description: This package provides model data and functions for easily using machine learning models that use data from the DNA methylome to classify cancer type and phenotype from a sample. The primary motivation for the development of this package is to abstract away the granular and accessibility-limiting code required to utilize machine learning models in R. Our package provides this abstraction for RandomForest, e1071 Support Vector, Extreme Gradient Boosting, and Tensorflow models. This is paired with an ExperimentHub component, which contains models developed for epigenetic cancer classification and predicting phenotypes. This includes CNS tumor classification, Pan-cancer classification, race prediction, cell of origin classification, and subtype classification models. The package links to our models on ExperimentHub. The package currently supports HM450, EPIC, EPICv2, MSA, and MM285. Version: 1.8.0 Authors@R: c(person("Wanding", "Zhou", role = c("aut"), email = "zhouwanding@gmail.com", comment = c(ORCID = "0000-0001-9126-1932")), person("Jacob", "Fanale", role = c("aut", "cre"), email = "jfanale@seas.upenn.edu", comment = c(ORCID = "0009-0002-0490-3269"))) License: Artistic-2.0 Depends: R (>= 4.4.0), ExperimentHub Imports: utils, stats, tools, sesame, methods, sesameData, BiocParallel, BiocManager VignetteBuilder: knitr Suggests: tibble, BiocStyle, randomForest, testthat, knitr, rmarkdown, e1071, xgboost, keras, tensorflow URL: https://github.com/zhou-lab/CytoMethIC BugReports: https://github.com/zhou-lab/CytoMethIC/issues biocViews: ExperimentData, MicroarrayData, Genome, ExperimentHub, MethylationArrayData, CancerData, PackageTypeData NeedsCompilation: no RoxygenNote: 7.3.2 Encoding: UTF-8 Packaged: 2026-10-10 11:18:27 UTC; root Config/pak/sysreqs: libicu-dev libpng-dev libssl-dev libx11-dev zlib1g-dev Repository: Bioconductor 3.23 Date/Publication: 2026-04-28 12:37:28 UTC RemoteUrl: https://github.com/bioc/CytoMethIC RemoteRef: RELEASE_3_23 RemoteSha: 07cb192e6acf6f5a3d5ffffc5a8de64bb0c0922a Author: Wanding Zhou [aut] (ORCID: ), Jacob Fanale [aut, cre] (ORCID: ) Maintainer: Jacob Fanale