Package: ChAMP
Type: Package
Title: Chip Analysis Methylation Pipeline for Illumina
        HumanMethylation450 and EPIC
Version: 2.38.0
Date: 2020-11-2
Description: The package includes quality control metrics, a selection of normalization methods and novel methods to identify differentially methylated regions and to highlight copy number alterations.
Authors@R: c(person("Tian","Yuan", role = c("cre", "aut"),
                    email = "champ450k@gmail.com"),
		person("Tiffany","Morris",role = "ctb"),
             person("Lee", "Stirling", role = "ctb"),
             person("Andrew", "Feber", role = "ctb"),
	     person("Andrew", "Teschendorff", role = "ctb"),
	     person("Ankur", "Chakravarthy", role = "ctb"))
License: GPL-3
VignetteBuilder: knitr
Depends: R (>= 3.3), minfi, ChAMPdata (>= 2.6.0),DMRcate,
        Illumina450ProbeVariants.db,IlluminaHumanMethylationEPICmanifest,
        DT, RPMM
Imports:
        prettydoc,Hmisc,globaltest,sva,illuminaio,rmarkdown,IlluminaHumanMethylation450kmanifest,IlluminaHumanMethylationEPICanno.ilm10b4.hg19,
        limma, DNAcopy, preprocessCore,impute, marray, wateRmelon,
        plyr,goseq,missMethyl,kpmt,ggplot2,
        GenomicRanges,qvalue,isva,doParallel,bumphunter,quadprog,shiny,shinythemes,plotly
        (>= 4.5.6),RColorBrewer,dendextend, matrixStats,combinat
biocViews: Microarray, MethylationArray, Normalization, TwoChannel,
        CopyNumber, DNAMethylation
Suggests: knitr,rmarkdown
Author: Yuan Tian [cre,aut],
  Tiffany Morris [ctb],
  Lee Stirling [ctb],
  Andrew Feber [ctb],
  Andrew Teschendorff [ctb],
  Ankur Chakravarthy [ctb]
Maintainer: Yuan Tian  <champ450k@gmail.com>
NeedsCompilation: no
Packaged: 2025-04-15 23:39:37 UTC; biocbuild
git_url: https://git.bioconductor.org/packages/ChAMP
git_branch: RELEASE_3_21
git_last_commit: 0d0d1be
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
Built: R 4.5.0; ; 2025-04-16 14:05:40 UTC; windows
