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Old 04-29-2013, 08:38 PM   #1
yjin005
Junior Member
 
Location: CA

Join Date: Apr 2013
Posts: 1
Default cummeRbund help!

I'm a new guy to bioinformatics.
i used tophat and cufflinks for my RNA-seq data to generate diff_out file.Until this step everything is fine.
then i started cummeRbund with my diff_out file, but always failed.

here is my command:
$ R
> library(cummeRbund)
> cuff_data <- readCufflinks('diff_out')
here is the problem:

Creating database diff_out/cuffData.db
Reading diff_out/genes.fpkm_tracking
Checking samples table...
Populating samples table...
Writing genes table
Reshaping geneData table
Recasting
Writing geneData table
Error in sqliteExecStatement(con, statement, bind.data) :
RS-DBI driver: (unable to bind data for parameter ':status')

Highly appreciate your help.
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Old 04-30-2013, 01:18 AM   #2
mknut
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Location: UK

Join Date: Jul 2012
Posts: 23
Default

The creator of cummeRbund (lgoff) has commented on identical problem here.
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