detectionPnegNormGS: Detection P-value emulating Genome Studio
In sesame: Tools For Analyzing Illumina Infinium DNA Methylation Arrays
Description
Usage
Arguments
Details
Value
Examples
Description
The function takes a SigSet as input, computes detection p-value
using negative control probes parametrized in a normal distribution a la
Genome Studio and returns a new SigSet with an updated pval slot.
Usage
1
detectionPnegNormGS(sset, force = FALSE)
Arguments
sset
a SigSet
force
force rerun even if result already exists
Details
P-value is calculated using negative control probes as the estimate of
background where Grn channel and Red channel are merged. But when
estimating p-value the Red and Grn are summed (non-ideal).
Value
detection p-value
Examples
1
2
sset <- makeExampleSeSAMeDataSet()
sset <- detectionPnegNormGS(sset)
sesame documentation built on Nov. 15, 2020, 2:08 a.m.
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Description Usage Arguments Details Value Examples
Description
The function takes a SigSet as input, computes detection p-value
using negative control probes parametrized in a normal distribution a la
Genome Studio and returns a new SigSet with an updated pval slot.
Usage
1 | detectionPnegNormGS(sset, force = FALSE)
|
Arguments
sset |
a |
force |
force rerun even if result already exists |
Details
P-value is calculated using negative control probes as the estimate of background where Grn channel and Red channel are merged. But when estimating p-value the Red and Grn are summed (non-ideal).
Value
detection p-value
Examples
1 2 | sset <- makeExampleSeSAMeDataSet()
sset <- detectionPnegNormGS(sset)
|
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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