estimateDispersions fails even with fitType local
1
0
Entering edit mode
sahiilseth • 0
@sahiilseth-9220
Last seen 9.1 years ago
United States

Hi DEXSeq Experts,

I have a dataset with 17 tumor normal pairs, and am trying to explore differential splicing. My first attempt at estimateDispersions failed, so I tried again with fitType="local", now this fails with the following error: 

 

design = ~sample + exon + condition:exon,

> dxd <- estimateDispersions(dxd, fitType="local", BPPARAM = MulticoreParam(18))
using supplied model matrix
Error in .rbind.SummarizedExperiment(args) :
  '...' objects must have the same number of samples

Would great to have your advice on this.

 

 

 

deseq2 dexseq alternative splicing • 1.2k views
ADD COMMENT
0
Entering edit mode
@mikelove
Last seen 8 days ago
United States

It might help if you provide the error message for the first attempt as well.

It may have something to do with the number of cores, as rbind is used to collect results after sending to the workers.

ADD COMMENT

Login before adding your answer.

Traffic: 414 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