CNAmet R package

I only have expression and 450k methylation data, can I still use CNAmet?

Yes, you can! Infact, since you can use the Illumina 450 Methylation array to assess both DNA methylation and copy-number, you can fully exploit the capabilities of CNAmet. See the how-to for specifics.

I only have methylation/copy-number and expression data, can I still use CNAmet?

Yes. CNAmet allows you to integrate only one type of data with expression data (just set the missing binary matrix NULL). You will then only get the scores for the single explanatory data type.

Can CNAmet deal with RNAseq expression data?

Yes it can. We have tested CNAmet with RNAseq RPKM values and it works as expected.

How do I preprocess my copy-number data?

See the how-to article.

How do I preprocess my methylation data?

See the how-to article.

Web site copyright Systems Biology Laboratory, University of Helsinki.
CNAmet copyright © 2010-2013 Riku Louhimo.
Page last updated 22 October 2012