spike-in based normalization of microarray
0
0
Entering edit mode
6.7 years ago
mforde84 ★ 1.4k

Hello,

I have CEL files from GeneChip miRNA v4.0. I would like to generate normalized data using a Loess curve subset with only spike-in probesets. Package affy has a function normalize.loess(mat, subset=...) which can accomplish the subseting portion, however after importing the CEL data using the oligo package I end up with ~300,000 annotations corresponding to PM sequences. How do I determine which PM sequencing in the annotation are associated with the spike-ins? I've checked the CSV annotation provided online, and they are all N-masked.

Martin

microarray • 1.3k views
ADD COMMENT

Login before adding your answer.

Traffic: 2842 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