cn.MOPS - reporting log normalized read counts as table
1
0
Entering edit mode
@falkzakrzewski-13567
Last seen 2.6 years ago

Dear developer team,

 

many thanks for the great tool cn.MOPS which I am running in R. It is very helpful for our analysis.  

 

May I ask you whether it is possible to report also the log normalized read counts (used for the seqplot function) as .csv table similar to the functions:

 

> segm <- as.data.frame(segmentation(result))

> CNVs <- as.data.frame(cnvs(result))

> CNVRegions <- as.data.frame(cnvr(result))

 

Many thanks for your help and

Best regards

 

cn.mops log normalized counts table • 985 views
ADD COMMENT
1
Entering edit mode
@gunter-klambauer-5426
Last seen 7 months ago
Austria

There is a hidden function called ".makeLogRatios" that you can apply to the cn.mops result object:

library(cn.mops)
data(cn.mops)
res <- cn.mops(XRanges)
logRatios <- cn.mops:::.makeLogRatios(res)
as.data.frame(logRatios)

 

Regards,

Günter

ADD COMMENT
0
Entering edit mode

Many thanks! It works.

ADD REPLY

Login before adding your answer.

Traffic: 393 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