Error: DESeq(dds , useT = TRUE, minmu = 1e-06, test = "LRT", : likelihood ratio test requires a 'reduced' design, see ?DESeq
1
0
Entering edit mode
abdi.zhr26 • 0
@621c6ee6
Last seen 25 days ago
Iran

Hi, I have tried to analyze my scRNA-Seq data set by DESeq2 but as I follow the Recommendations for single-cell analysis,

dds <- DESeq(dds, useT=TRUE, minmu=1e-6, test="LRT",
                      fitType = "glmGamPoi")

I have received this error and couldn't fix it.

Error in DESeq(dds, useT = TRUE, minmu = 1e-06, test = "LRT",  : 
  likelihood ratio test requires a 'reduced' design, see ?DESeq

I would appreciate it if someone could help me.

scRNAseq DESeq2 • 120 views
ADD COMMENT
0
Entering edit mode
ATpoint ★ 1.4k
@atpoint-13662
Last seen 1 day ago
Germany

Would you mind reading the vignette towards how the LRT works: http://bioconductor.org/packages/devel/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#likelihood-ratio-test

ADD COMMENT

Login before adding your answer.

Traffic: 386 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