lumiMethyStatus: Estimate the methylation status of individual methylation...
In lumi: BeadArray Specific Methods for Illumina Methylation and Expression Microarrays
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Examples
View source: R/methylation_preprocessing.R
Description
Estimate the methylation status of individual methylation sites by fitting a two component Gamma mixture model for each sample
Usage
1
lumiMethyStatus(methyLumiM, ...)
Arguments
methyLumiM
a MethyLumiM class object
...
Other parameters used by methylationCall
Details
This function calls methylationCall and returns the methylation status of individual methylation sites. The methylation status includes: "Unmethy" (unmethylation probability > unmethylation threshold), "Methy" (methylation probability > methylation threshold), or "Margin". The methylation probability is returned as an attribute of "probability".
Value
return a methylation status matrix with "probability" attribute
Author(s)
Pan Du
See Also
See Also methylationCall and gammaFitEM
Examples
1
2
3
data(example.lumiMethy)
methyCall <- lumiMethyStatus(example.lumiMethy)
head(methyCall)
lumi documentation built on Nov. 8, 2020, 5:27 p.m.
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Description Usage Arguments Details Value Author(s) See Also Examples
View source: R/methylation_preprocessing.R
Description
Estimate the methylation status of individual methylation sites by fitting a two component Gamma mixture model for each sample
Usage
1 | lumiMethyStatus(methyLumiM, ...)
|
Arguments
methyLumiM |
a MethyLumiM class object |
... |
Other parameters used by |
Details
This function calls methylationCall and returns the methylation status of individual methylation sites. The methylation status includes: "Unmethy" (unmethylation probability > unmethylation threshold), "Methy" (methylation probability > methylation threshold), or "Margin". The methylation probability is returned as an attribute of "probability".
Value
return a methylation status matrix with "probability" attribute
Author(s)
Pan Du
See Also
See Also methylationCall and gammaFitEM
Examples
1 2 3 | data(example.lumiMethy)
methyCall <- lumiMethyStatus(example.lumiMethy)
head(methyCall)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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