Combine everything in the results list into a single table

Usage

summarize.res.list(
  res.list,
  dds.list,
  dds_mapping,
  alpha,
  lfc.thresh,
  labels = NULL
)

Arguments

res.list

Named list of lists, where each sublist contains the following names: c('res', 'dds', 'label'). "res" is a DESeqResults object, "dds" is either the indexing label for the dds.list object or the DESeq object, and "label" is a nicer-looking label to use. NOTE: backwards compatibility with older versions of lcdb-wf depends on no dds.list object being passed.

dds.list

List of DESeqDataSet objects whose names are expected to match 'dds' slots in the 'res.list' object

dds_mapping

List mapping names of dds.list to res.list elements

alpha

false-discovery rate threshold

lfc.thresh

log2FoldChange threshold

labels

list of descriptions for res.list elements

NOTE: this is edited to match the structure used in the shiny app. Specifically res.list and dds.list both are expected to have the same number and names of elements.

Value

Dataframe