degQC, ggplot2::labels Error

[lgleon]

Hello,

I am following the vignette of the DEGreport, all good until I got to the representation of the data.

All the initial part, work nice and smooth:

'''
data(humanGender)

idx <- c(1:10, 75:85)
edds <- DESeqDataSetFromMatrix(assays(humanGender)[[1]][1:1000, idx],
colData(humanGender)[idx,], design=~group)
edds <- DESeq(edds)
eres <- results(edds)

ecounts <- counts(edds, normalized = TRUE)
edesign <- as.data.frame(colData(edds))

'''

The Variance reprsentation work well too,

Then the mean-variance QC plots, is not working.
In the wignete there is already a Warning, about the guides,
Now in my console instead of a warning is an Error and I cannot keep going.

'''
degQC(counts, design[["group"]], pvalue = res[["pvalue"]])
'''

Error in the Console:

degQC(ecounts, edesign[["group"]], pvalue = eres[["pvalue"]])
Error: ggplot2::labels object is invalid:

• every label must be named.

Please any idea to fix this?
Thanks

L

[sroostee]

I have a similar issue for the degVolcano function and I believe it has to do with the new ggplot2 release.

From the example:

`dds <- makeExampleDESeqDataSet(betaSD = 1)

dds <- DESeq(dds)

stats <- results(dds)[,c("log2FoldChange", "padj")]

degVolcano(stats, plot_text = stats[1:10,])
`

returns

`Error: ggplot2::labels object is invalid:

• every label must be named.`

Running this with DEGreport_1.46.0 and ggplot2_4.0.0