Hi all,
I tried to make a heatmap through CummeRbund, but was unable to complete it.
This is what I inserted in R (with output):
> library(cummeRbund)
> cuff_data<-readCufflinks('diff_out')
> mySigGeneIds<-getSig(cuff_data,alpha=0.05,level='genes')
> mySigGenes<-getGenes(cuff_data,mySigGeneIds)
Getting gene information:
FPKM
Differential Expression Data
Annotation Data
Replicate FPKMs
Error in sqliteExecStatement(con, statement, bind.data) :
RS-DBI driver: (error in statement: no such table: geneReplicateData)
Somehow the geneReplicateData seems to be missing, whereas I originally did have 4 biological replicates per condition.
Is there perhaps a way to bypass the replicate data and still end up with a vector MySigGenes which I can then use for the csHeatmap function?
Thanks in advance for any help!
I tried to make a heatmap through CummeRbund, but was unable to complete it.
This is what I inserted in R (with output):
> library(cummeRbund)
> cuff_data<-readCufflinks('diff_out')
> mySigGeneIds<-getSig(cuff_data,alpha=0.05,level='genes')
> mySigGenes<-getGenes(cuff_data,mySigGeneIds)
Getting gene information:
FPKM
Differential Expression Data
Annotation Data
Replicate FPKMs
Error in sqliteExecStatement(con, statement, bind.data) :
RS-DBI driver: (error in statement: no such table: geneReplicateData)
Somehow the geneReplicateData seems to be missing, whereas I originally did have 4 biological replicates per condition.
Is there perhaps a way to bypass the replicate data and still end up with a vector MySigGenes which I can then use for the csHeatmap function?
Thanks in advance for any help!
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