getAllDEGs: Given a Decision matrix (output of decideTests), it returns...
In mssm-msf-2019/BiostatsALL:
Description
Usage
Arguments
Examples
Description
When several contrats are tested in limma, a call over if the gene is differentially Expressed is made after defining the FCH and FDR/p cutoffs
using the decideTestFunctions. This function takes that output and returns of vector that are DEG in at least 1 comparison.
Usage
1
Arguments
coefs.lg:
matrix of log fold changes, usually the estimated coeficients of the limma model (ebfit$coef)
Examples
1
2
D<-decideTests(ebfit,method="separate",adjust.method="BH",p.value=0.05,lfc=log2(2))
DEGs<-getAllDEGs(D)
mssm-msf-2019/BiostatsALL documentation built on May 22, 2019, 12:16 p.m.
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Description Usage Arguments Examples
Description
When several contrats are tested in limma, a call over if the gene is differentially Expressed is made after defining the FCH and FDR/p cutoffs using the decideTestFunctions. This function takes that output and returns of vector that are DEG in at least 1 comparison.
Usage
1 |
Arguments
coefs.lg: |
matrix of log fold changes, usually the estimated coeficients of the limma model (ebfit$coef) |
Examples
1 2 | D<-decideTests(ebfit,method="separate",adjust.method="BH",p.value=0.05,lfc=log2(2))
DEGs<-getAllDEGs(D)
|
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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