Hi Rory,

I was trying to plot, using DiffBind_2.2.12, a Venn diagram for the following contrast (the only one present in my DBA object):

1 Contrast:
  Group1 Members1 Group2 Members2 DB.edgeR
1  CondA        3  CondB        3    64883

...which I generated using these commands:

> db_analysis = dba.contrast(db_analysis, minMembers=3, categories=DBA_TREATMENT)
> db_analysis = dba.analyze(db_analysis, method=DBA_EDGER)

However, I got the following error:

> dba.plotVenn(db_analysis, contrast=1, th=0.05, method=DBA_EDGER)
Error in dba.plotVenn(db_analysis, contrast = 1, th = 0.05, method = DBA_EDGER) :
  Only one peakset meets specified criteria.

Could you please help me to find out what I am doing wrong?

Thanks a lot!

Silvia

Hi Silvia-

When you specify contrasts to dba.plotVenn(), it will show the overlap of differentially bound sites in the results for the contrasts. Therefore you need to specify more than one contrast (or alternatively, more than one analysis method for a contrast) to have something to overlap. You have specified a single contrast (contrast=1) and a single analysis method (method=DBA_EDGER), so there is only one set of differentially bound sites -- hence nothing to show the overlap for.

Cheers-

Rory