runSVA: Function runSVA
In jrthompson54/DGE.Tools2: A function library to facilitate Differential Gene Expression Analysis
Description
Usage
Arguments
Value
Author(s)
Examples
Description
Takes an DGEobj from runVoom and tests for surrogate variables. Adds a new
design matrix to the DGEobj with the surrogate variable columns appended (cbind).
runVoom should then be run again with the new design matrix to complete the
analysis.
Usage
1
runSVA(dgeObj, designMatrixName, method = "leek")
Arguments
dgeObj
A DGEobj with normalized counts and a DesignMatrix.
designMatrixName
The itemName of the design matrix in DGEobj
method
method passed to num.sv. ["leek" or "be"; default = "leek"]
Value
dgeObj The DGEobj is returned containing a new design matrix and an updated design table.
Author(s)
John Thompson, john.thompson@bms.com
Examples
1
MyDgeObj = runSVA (MyDgeObj)
jrthompson54/DGE.Tools2 documentation built on May 12, 2021, 8:47 p.m.
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Description Usage Arguments Value Author(s) Examples
Description
Takes an DGEobj from runVoom and tests for surrogate variables. Adds a new design matrix to the DGEobj with the surrogate variable columns appended (cbind). runVoom should then be run again with the new design matrix to complete the analysis.
Usage
1 | runSVA(dgeObj, designMatrixName, method = "leek")
|
Arguments
dgeObj |
A DGEobj with normalized counts and a DesignMatrix. |
designMatrixName |
The itemName of the design matrix in DGEobj |
method |
method passed to num.sv. ["leek" or "be"; default = "leek"] |
Value
dgeObj The DGEobj is returned containing a new design matrix and an updated design table.
Author(s)
John Thompson, john.thompson@bms.com
Examples
1 | MyDgeObj = runSVA (MyDgeObj)
|
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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