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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("methylMnM")
AuthorYan Zhou, Bo Zhang, Nan Lin, BaoXue Zhang and Ting Wang
Bioconductor views DNAMethylation Sequencing Software
Date of publicationNone
MaintainerYan Zhou<zhouy1016@163.com>
LicenseGPL-3
Version1.14.0

View on Bioconductor

Files

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

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