pwod: Probe-Wise Outlier Detection
In schalkwyk/wateRmelon: Illumina 450 and EPIC methylation array normalization and metrics
pwod R Documentation
Probe-Wise Outlier Detection
Description
'P'robe-'W'ise 'O'utlier 'D'etection via interquartile ranges.
Usage
pwod(object, mul=4)
Arguments
object
MethyLumiSet, RGChannelSet, MethylSet object or matrix containing betas.
mul
Number of interquartile ranges used to determine outlying probes. Default is 4 to ensure only very
obvious outliers are removed.
Details
Detects outlying probes across arrays in methylumi and minfi objects. Outliers are probable low MAF/SNP heterozygotes.
Value
Returns supplied beta matrix with outlying probes coerced to NA
Author(s)
Tyler Gorrie-Stone - tgorri@essex.ac.uk
Examples
library(wateRmelon)
data(melon)
cattle <- betas(melon)
new.betas <- pwod(cattle, mul=4)
schalkwyk/wateRmelon documentation built on April 15, 2024, 12:06 p.m.
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| pwod | R Documentation |
Probe-Wise Outlier Detection
Description
'P'robe-'W'ise 'O'utlier 'D'etection via interquartile ranges.
Usage
pwod(object, mul=4)
Arguments
object |
MethyLumiSet, RGChannelSet, MethylSet object or matrix containing betas. |
mul |
Number of interquartile ranges used to determine outlying probes. Default is 4 to ensure only very obvious outliers are removed. |
Details
Detects outlying probes across arrays in methylumi and minfi objects. Outliers are probable low MAF/SNP heterozygotes.
Value
Returns supplied beta matrix with outlying probes coerced to NA
Author(s)
Tyler Gorrie-Stone - tgorri@essex.ac.uk
Examples
library(wateRmelon)
data(melon)
cattle <- betas(melon)
new.betas <- pwod(cattle, mul=4)
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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