methylMnM: detect different methylation level (DMR)

To give the exactly p-value and q-value of MeDIP-seq and MRE-seq data for different samples comparation.

AuthorYan Zhou, Bo Zhang, Nan Lin, BaoXue Zhang and Ting Wang
Date of publicationNone
MaintainerYan Zhou<zhouy1016@163.com>
LicenseGPL-3
Version1.12.0

View on Bioconductor

Files

methylMnM/DESCRIPTION
methylMnM/NAMESPACE
methylMnM/R
methylMnM/R/CNVnormal.R methylMnM/R/MnM.qvalue.R methylMnM/R/MnM.selectDMR.R methylMnM/R/MnM.test.R methylMnM/R/calcFactornew.R methylMnM/R/calculatecount.R methylMnM/R/calculatecount1.R methylMnM/R/calculatecountneg.R methylMnM/R/countMREbin.R methylMnM/R/countMREcpgbin.R methylMnM/R/countMeDIPbin.R methylMnM/R/countcpgbin.R methylMnM/R/cpgcount.R methylMnM/R/normpdf.R methylMnM/R/normpdft1.R methylMnM/R/pmultinom.R methylMnM/R/qvalue.rank.R methylMnM/R/removeblacklist.R
methylMnM/build
methylMnM/build/vignette.rds
methylMnM/inst
methylMnM/inst/doc
methylMnM/inst/doc/methylMnM.R
methylMnM/inst/doc/methylMnM.Rnw
methylMnM/inst/doc/methylMnM.pdf
methylMnM/inst/extdata
methylMnM/inst/extdata/H1ESB1_MRE_18.extended.txt
methylMnM/inst/extdata/H1ESB1_MeDIP_18.extended.txt
methylMnM/inst/extdata/H1ESB2_MRE_18.extended.txt
methylMnM/inst/extdata/H1ESB2_Medip_18.extended.txt
methylMnM/inst/extdata/all_CpGsite_chr18.txt
methylMnM/inst/extdata/three_Mre_CpGsite_chr18.txt
methylMnM/man
methylMnM/man/CNVnormal.Rd methylMnM/man/MnM-package.Rd methylMnM/man/MnM.qvalue.Rd methylMnM/man/MnM.selectDMR.Rd methylMnM/man/MnM.test.Rd methylMnM/man/calcFactornew.Rd methylMnM/man/calculatecount.Rd methylMnM/man/calculatecount1.Rd methylMnM/man/calculatecountneg.Rd methylMnM/man/countMREbin.Rd methylMnM/man/countMREcpgbin.Rd methylMnM/man/countMeDIPbin.Rd methylMnM/man/countcpgbin.Rd methylMnM/man/cpgcount.Rd methylMnM/man/normpdf.Rd methylMnM/man/normpdf1.Rd methylMnM/man/pmultinom.Rd methylMnM/man/qvalue.rank.Rd methylMnM/man/removeblacklist.Rd
methylMnM/src
methylMnM/src/CpGcount.c
methylMnM/src/calculatecount.c
methylMnM/src/calculatecount1.c
methylMnM/src/calculatecountneg.c
methylMnM/src/methylmnm.h
methylMnM/src/pmultinom.c
methylMnM/src/pvalueclassify.c
methylMnM/src/register.c
methylMnM/vignettes
methylMnM/vignettes/methylMnM.Rnw

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