as.GRanges | Cast to GRranges |
as.GRanges-method | Cast to GRranges |
dmrscan | DMR Scan function |
DMRScan.methylationData | DMRScan |
DMRScan.phenotypes | DMRScan |
estimateThreshold | EstimateWindowThresholds |
estimateWindowThreshold | EstimateWindowThresholds |
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 |
makeRegions | 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 |
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 |