negativeFactor: Acessor functions for the 'negativeFactor' slot in a...
In tingtina/NanoStringDiff: Differential Expression Analysis of NanoString nCounter Data
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Examples
Description
Negative size factors can be used to adjust background niose for each sample.
Usage
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## S4 method for signature 'NanoStringSet'
negativeFactor(object)
## S4 replacement method for signature 'NanoStringSet,numeric'
negativeFactor(object) <- value
Arguments
object
A NanoStringSet object.
value
A vector of background noise.
Details
Accurate estimation of system background is essential for DE detection
analysis. Each code set in the nCounter Analyzer includes several negatives
control genes for which no tranCounterript is expected to be present.
We use these spike-in negative control genes to estimate background
noise for each sample
Value
A vector contain background noise
Author(s)
Hong Wang <hong.wang@uky.edu>
chi wang <chi.wang@uky.edu>
See Also
negativeControl
Examples
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data(NanoStringData)
## obtain negative factors
negativeFactor(NanoStringData)
## assign a vector
n=ncol(exprs(NanoStringData))
lamda=rpois(n,10)
negativeFactor(NanoStringData)=lamda
tingtina/NanoStringDiff documentation built on May 24, 2019, 10 p.m.
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Description Usage Arguments Details Value Author(s) See Also Examples
Description
Negative size factors can be used to adjust background niose for each sample.
Usage
1 2 3 4 | ## S4 method for signature 'NanoStringSet'
negativeFactor(object)
## S4 replacement method for signature 'NanoStringSet,numeric'
negativeFactor(object) <- value
|
Arguments
object |
A NanoStringSet object. |
value |
A vector of background noise. |
Details
Accurate estimation of system background is essential for DE detection analysis. Each code set in the nCounter Analyzer includes several negatives control genes for which no tranCounterript is expected to be present. We use these spike-in negative control genes to estimate background noise for each sample
Value
A vector contain background noise
Author(s)
Hong Wang <hong.wang@uky.edu> chi wang <chi.wang@uky.edu>
See Also
negativeControl
Examples
1 2 3 4 5 6 7 8 | data(NanoStringData)
## obtain negative factors
negativeFactor(NanoStringData)
## assign a vector
n=ncol(exprs(NanoStringData))
lamda=rpois(n,10)
negativeFactor(NanoStringData)=lamda
|
R Package Documentation
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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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