DESeq2 analysis has not been run for this contrast
1
0
Entering edit mode
Wang • 0
@e16bdcce
Last seen 21 months ago
Hong Kong

error :DESeq2 analysis has not been run for this contrast

DB.DESeq2 = 0

enter image description here

enter image description here

I think until this step everything is ok enter image description here

here is my file↓

enter image description here

here is my code ↓


# dbObj_contrast <- dba.contrast(dbObj_count, contrast=c("Condition","Responsive","Resistant"))
#dbObj_contrast 
#dbObj_analyze <- dba.analyze(dbObj_contrast)
#dba.show(dbObj_analyze,bContrasts=TRUE)
R DiffBind • 1.0k views
ADD COMMENT
0
Entering edit mode
ATpoint ★ 4.0k
@atpoint-13662
Last seen 3 days ago
Germany

The warnings come from the ashr shrinkage: Warnings when using "ashr" in lfcshrinkage for DESeq2

ADD COMMENT
0
Entering edit mode

After I install the package "stephenslab/mixsqp" I still have the same problem.

My DB.DESeq2 is shows 0.

ADD REPLY

Login before adding your answer.

Traffic: 822 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6