# Detection of Differentially Methylated Regions

## Documentation for package ‘DMRScan’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

DMRScan_package-package | DMRScan: An R-package for identification of Differentially Metylated Regions
DMRScan | DMR Scan function
DMRscan | DMR Scan function
DMRScan.methylationData | DMRScan
DMRScan.phenotypes | DMRScan
DMRScan_package | DMRScan: An R-package for identification of Differentially Metylated Regions
estimateThreshold | Estimate window thresholds
estimateWindowThreshold | Estimate window thresholds
getRegions | Method getRegions
getRegions-method | Method getRegions
head-method | Cat the head of a list of regions in a RegionList object
length-method | Calculate the length of a region in terms of CpGs
makeCpGgenes | Cluster
makeCpGregions | Cluster
manyWindowSizeScanner | Method Fixed window size scan for a sequence of window sizes
manyWindowSizeScanner-method | Method Fixed window size scan for a sequence of window sizes
names-method | Get the names of all probes within a region
nCpG | Method nCpG
nCpG-method | Method nCpG
oneWindowSizeScanner | Method Fixed window size scan for one window size
oneWindowSizeScanner-method | Method Fixed window size scan for one window size
plot | Plot DMRs of type Region
plot.Region | Plot DMRs of type Region
pos | Method pos
pos-method | Method pos
print-method | Print a region
pVal | Method get pvalue
pVal-method | Method get pvalue
range-method | Get the genomic position of a Region
Region | Shorthand for initializing region
Region-class | Object of type Region
RegionList | Shorthand for initializing RegionList
RegionList-class | Class RegionList Class 'RegionList' is a collection of Regions
Rt | Method Fixed window size scan for one window size
Rt-method | Method Fixed window size scan for one window size
setRegion | Method setRegion
setRegion-method | Method setRegion
show-method | Show a region
sort-method | Sort a set of regions on p-value in a RegionList object
St | Method Fixed window size scan for a sequence of window sizes
tVal | Method get T statistic for a region
tVal-method | Method get T statistic for a region
[ | Get Object Region
[-method | Get Object Region
[[ | Get Object Region
[[-method | Get Object Region