lumi: can't see sample corr pairwise and MAplot plots
1
0
Entering edit mode
@frederico-moraes-ferreira-5929
Last seen 3.7 years ago
Brazil

Dear List, 

Perhaps this is a stupid question, but I could found an answer to that. I can´ t be able to see the lumi QC sample correlation pairwise and also MAplot plots due to a high number of samples (150). Well, of course I don't intend to see all of the them. However, it would be desirable to check at least a few number of plots. How people have been dealing with such problem? Thanks in advance.

Fred 

lumi plot • 709 views
ADD COMMENT
0
Entering edit mode
@gordon-smyth
Last seen 1 hour ago
WEHI, Melbourne, Australia

Not sure how to solve your problem with the lumi package. An alternative is to read your read your Illumina BeadChip files using the read.ilmn() function of the limma package. Then you can normalize using neqc() and make MA plots one at a time using plotMA().

ADD COMMENT

Login before adding your answer.

Traffic: 191 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