CytoMethIC
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see CytoMethIC.
DNA methylation-based classification and regression
Bioconductor version: 3.19
This package provides DNA methylation-based prediction of cancer type, molecular signature and clinical outcomes. It provides convenience functions for missing value imputation, probe ID conversion, model interpretation and visualization. The package links to our models on ExperimentHub. The package currently supports HM450, EPIC and EPICv2.
Author: Wanding Zhou [aut] 
, Jacob Fanale [aut, cre]
Maintainer: Jacob Fanale <jfanale at seas.upenn.edu>
citation("CytoMethIC")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CytoMethIC")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CytoMethIC")| CytoMethIC User Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | CancerData, ExperimentData, ExperimentHub, Genome, MethylationArrayData, MicroarrayData, PackageTypeData |
| Version | 1.0.0 |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0), ExperimentHub |
| Imports | tibble, utils, stats, tools, sesame, methods, sesameData, BiocParallel, BiocManager |
| System Requirements | |
| URL | https://github.com/zhou-lab/CytoMethIC |
| Bug Reports | https://github.com/zhou-lab/CytoMethIC/issues |
See More
| Suggests | BiocStyle, randomForest, testthat, knitr, rmarkdown, e1071, xgboost, keras, tensorflow |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CytoMethIC_1.0.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/CytoMethIC |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CytoMethIC |
| Package Short Url | https://bioconductor.org/packages/CytoMethIC/ |
| Package Downloads Report | Download Stats |