champ.norm error
0
0
Entering edit mode
11 days ago
bioLearner • 0

I am running a methylation data analysis using ChAMP package. I did champ.load from .idat files and now am trying to do champ.norm with BMIQ method and get the following error:

Error in champ.BMIQ(beta[, x], design.v, sampleID = colnames(beta)[x],  : 
  task 165 failed - "need at least 2 points to select a bandwidth automatically"

How do I fix it?

methylation normalization BMIQ ChAMP champ.norm • 239 views
ADD COMMENT
0
Entering edit mode

Could you check colSums(is.na(beta)) ?

ADD REPLY
0
Entering edit mode

Yes! I checked

sum(is.na(myLoad$beta)) 
any(myLoad$beta == 0)

and there were none

ADD REPLY

Login before adding your answer.

Traffic: 1567 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