Question: diffBind volcano plot error
gravatar for rbronste
4 weeks ago by
rbronste60 wrote:

Hi I am getting the following error:

dba.plotVolcano(CR_count,th=0.1,fold=1,method = DBA_DESEQ2_BLOCK, bFlip = TRUE)
Error in `.rowNamesDF<-`(x, value = value) : invalid 'row.names' length

This happens only when I take a .csv sample file and make a secondary file with half of the conditions present in the original, however def enough to do comparisons with. Wondering if this is a bug? Thanks.

ADD COMMENTlink modified 4 weeks ago • written 4 weeks ago by rbronste60

If you subset a data.frame that contains a factor (and in so doing you remove one or more levels of the factor), the levels of the factor are not reset. If the levels of that factor are then used for something like generating the rownames of a data.frame, then you can have problems.

However, you have been around long enough to know that you need to provide a self-contained example of the problem and the output of sessionInfo, and without that it's at least as likely to be user error rather than a bug.

ADD REPLYlink written 4 weeks ago by James W. MacDonald52k
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