subtract_expt: Try a very literal subtraction

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Try a very literal subtraction

Description

Try a very literal subtraction

Usage

subtract_expt(
  expt,
  new_meta,
  sample_column = "sample",
  convert_state = "cpm",
  transform_state = "raw",
  handle_negative = "zero",
  savefile = "subtracted.rda",
  ...
)

Arguments

expt	Input expressionset.
new_meta	dataframe containing the new metadata.
sample_column	Column in the sample sheet to use to acquire the sample IDs given the subtractions.
convert_state	Expected state of the input data vis a vis conversion (rpkm/cpm).
transform_state	Expected state of the input data vis a vis transformation (log/linear).
handle_negative	Set negative subtracted values to zero?
savefile	Save the new expt data to this file.
...	Parameters to pass to normalize_expt()

Value

New expt

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.