How to select data from assays list in SummarizedExperiment to plot
I am using DEP Bioconductor package bioconductor.org/packages/release/bioc/vignettes/DEP/inst/doc/DEP.html
I want to visualize normal distribution of data using fitdistrplus pakage’s descdist
function
However I get an error. How can I select data from assays list in SummarizedExperiment to plot?
data_norm <- normalize_vsn(data_filt)
data_for_dist <- data_filt@assays$
.->data
@listData %>%as.data.frame() %>% na.omit() %>% gather(sample,value)descdist(data_for_dist$value)
Error
Error in h(simpleError(msg, call)) : error in evaluating the argument 'object' in selecting a method for function 'na.omit': error in evaluating the argument 'x' in selecting a method for function 'as.data.frame': $ operator not defined for this S4 class
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