Advise how VST will transform data

vst_advice(
  what = "anscombe.nb",
  dispersion = NULL,
  cpm = FALSE,
  lib.size = NULL
)

Arguments

what: Either the output of a call to vst() or the name of a VST method (see vst() help).
dispersion: As per vst().
cpm: As per vst().
lib.size: As per vst().

Value

A data frame giving an indication of how an average sample will be transformed.

The column "twofold_step" shows the step from the previous to current row. With a log2 transformation this would be uniformly 1, but with a VST and small counts the step is less than 1. This therefore provides advice on how compacted the VST is near zero-count, as compared to a log2 transformation.

Note that the results given are for an average sample. Where library sizes differ wildly, the VST may perform poorly.