B2M |
Convert Beta value to M value. |
calc_detP |
Calculate detection P values |
combp |
Differentially methylated region finder using a modified comb-p method |
ctrlsva |
Non-negative control surrogate variables |
dupicc |
Methylation duplicates evaluation. |
estimateCellProp |
Cell Proportion Estimation |
freqpoly |
Frequency polygon plot |
getB |
Extract Beta value. |
getCGinfo |
CpG probe annotation inforamtion |
getmeth |
Create a methDataSet |
ipdmr |
Differentially methylated region finder using interval P values |
M2B |
Convert M value to Beta value. |
methDataSet |
Class '"methDataSet"' |
methDataSet-class |
Class '"methDataSet"' |
methyAge |
Calculate Methylation Age |
mhtplot |
P value manhattan plot |
mpreprocess |
A pipeline to perform background correction, dye bias correction, inter-array normalization and probe type bias correction for HumanMethylation 450 and MethylationEPIC BeadChip data. |
multifreqpoly |
Frequency polygon plot to display data distribution. |
nmode.mc |
Estimating number of mode in methylaion data for each probe. |
norm.quantile |
Quantile normalization. |
normalize.quantile.450k |
Quantile normalization. |
oxBS.MLE |
oxBS-MLE. |
p.qqplot |
P value Q-Q plot |
pcrplot |
Principal component regression plot |
plotCtrl |
Plot internal controls of 450K or MethylationEPIC BeadChip. |
predSex |
Estimating sample sex based on methylation data |
preprocessENmix |
The ENmix background correction for HumanMethylation 450 and MethylationEPIC BeadChip |
QCfilter |
Sample or CpG probe filter. |
QCinfo |
QC information. |
rcp |
Regression on Correlated Probes(RCP) |
readidat |
Parsing IDAT files from Illumina methylation arrays. |
readmanifest |
Parsing Illumina methylation arrays manifest file. |
relic |
RELIC dye bias correction method for Illumina HumanMethylation450 and MethylationEPIC BeadChip |
rgDataSet |
Class '"rgDataSet"' |
rgDataSet-class |
Class '"rgDataSet"' |
rm.outlier |
Filtering out outlier and/or low quality values |
show-method |
Class '"methDataSet"' |
show-method |
Class '"rgDataSet"' |