I am working on GO analysis in arabidopsis and have done the analysis bit and am working on creating the heat map and scatterplot but am getting the error below.
# Heatmap and scatter plot following GO biological process analysis
> for (gs in rownames(go.bp$less)[1:3]) {
+ outname = gsub(" |:|/", "_", substr(gs, 12, 100))
+ geneData(genes = ath.sets[[gs]], exprs = exp.fc, ref = NULL,
+ samp = NULL, outname = outname, txt = TRUE, heatmap = TRUE,
+ limit = 3, scatterplot = TRUE)}
Error in 1:ncol(exprs) : argument of length 0
It appears to me that the error is in my expression data. I am using the "RNA-seq data Pathway and Gene-set Analysis Workflos as my guide so my expression data comes in from edgeR. If you have ideas please help!
# Heatmap and scatter plot following GO biological process analysis
> for (gs in rownames(go.bp$less)[1:3]) {
+ outname = gsub(" |:|/", "_", substr(gs, 12, 100))
+ geneData(genes = ath.sets[[gs]], exprs = exp.fc, ref = NULL,
+ samp = NULL, outname = outname, txt = TRUE, heatmap = TRUE,
+ limit = 3, scatterplot = TRUE)}
Error in 1:ncol(exprs) : argument of length 0
It appears to me that the error is in my expression data. I am using the "RNA-seq data Pathway and Gene-set Analysis Workflos as my guide so my expression data comes in from edgeR. If you have ideas please help!
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