Entering edit mode
2.5 years ago
bioinformatics.girl
▴
20
So I'm performing an ATAC-seq analysis using ArchR software and have had the same error persisting when running the following:
p <- ggPoint( # ggPoint: a ggplot-based dot plot wrapper function
x = df[,1],
y = df[,2],
colorDensity = TRUE,
continuousSet = "sambaNight",
xlabel = "Log10UniqueFragments",
ylabel = "TSS Enrichment",
xlim = c(log10(500), quantile(df[,1], probs = 0.99)),
ylim = c(0, quantile(df[,2], probs = 0.99))
) + geom_hline(yintercept = 4, lty = "dashed") + geom_vline(xintercept = 3, lty = "dashed")
Error in df[, 1]: object of type 'closure' is not subsettable
I have also tried switching out the brackets for parantheses but this does not fix the error. Any suggestions?
what happens when you type just
df[,1]
? Do you get the same error? If yes, can you also provide the output ofstr(df)
?