SEQanswers

SEQanswers (http://seqanswers.com/forums/index.php)
-   Bioinformatics (http://seqanswers.com/forums/forumdisplay.php?f=18)
-   -   CummeRbund Volcanoplot error (http://seqanswers.com/forums/showthread.php?t=19379)

Him26 04-20-2012 06:48 AM

CummeRbund Volcanoplot error
 
HI,
I am a newbie and I started using cummeRbund about two weeks.
few days ago I upgraded the R version to 2.15 and cummerbund to 1.2.
ever since, when I try to plot volcanoplot I get a following error.

> cufdat2b=readCufflinks('diff_out_2b/')
> csVolcano(genes(cufdat2b),'C','P')
Error in eval(expr, envir, enclos) : object 'log2_fold_change' not found

Can some one tell me what is wrong?
Thank you.

Him26 04-20-2012 11:50 AM

The solution to the problem was to rebuild the database.

>library(cummerbund)
>cuff<-readCufflinks(rebuild=T)

After rebuilding it worked fine.
Thank you.


All times are GMT -8. The time now is 08:36 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.