ilumi.preprocess: internal fxn for illumina microarray preprocessing
In htc502/ewrefxn: this package collects r fxns useful in my daily coding life
Description
Usage
Arguments
Value
Author(s)
Description
internal fxn for illumina microarray preprocessing
Usage
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ilumi.preprocess(
dataFile,
controlFile = NULL,
arrayDesignFile = NULL,
detection.p = 0.05,
detectionRate = 0.5,
norm.method = "ssn"
)
Arguments
dataFile
this is the expression datafile exported from genomeStudio
controlFile
control probe signal file. This file is optional, it is also exported form genomestudio for background correction
arrayDesignFile
this is the 'sdrf file'
detection.p
detection pvalue threshold
detectionRate
PMA_cutoff analogue to affymatrix array
norm.method
normalization method
Value
a list of expressionMatrix, sample metaInfo, and probe annotation info
Author(s)
guangchun han
htc502/ewrefxn documentation built on Feb. 2, 2020, 9:14 a.m.
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Description Usage Arguments Value Author(s)
Description
internal fxn for illumina microarray preprocessing
Usage
1 2 3 4 5 6 7 8 | ilumi.preprocess(
dataFile,
controlFile = NULL,
arrayDesignFile = NULL,
detection.p = 0.05,
detectionRate = 0.5,
norm.method = "ssn"
)
|
Arguments
dataFile |
this is the expression datafile exported from genomeStudio |
controlFile |
control probe signal file. This file is optional, it is also exported form genomestudio for background correction |
arrayDesignFile |
this is the 'sdrf file' |
detection.p |
detection pvalue threshold |
detectionRate |
PMA_cutoff analogue to affymatrix array |
norm.method |
normalization method |
Value
a list of expressionMatrix, sample metaInfo, and probe annotation info
Author(s)
guangchun han
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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