lab does not properly output labels when column name is input

[rjferrer]

Hi,

The documentation says the input for lab is a column name in the data table. But when I did this:

EnhancedVolcano(res, lab = "X_1", x = 'log2FoldChange', y = 'padj')

The output is like this:

This is the structure of my data table:

[allaway]

I also have this issue with the latest BioC release.

[allaway]

FYI, a simple fix is to do something like this (in your example):

EnhancedVolcano(res,
lab = res$X_1,
x = 'log2FoldChange',
y = 'padj')

Note that this might not work in all situations, e.g. if there are parameters in EnhancedVolcano that filter out some of the rows...I have just started using it so not sure about this.