wrangle_validation_data: Compute reference-derived per-sample scale factor

In kimberlyroche/codaDE: What the Package Does in One 'Title Case' Line

Compute reference-derived per-sample scale factor

Description

Compute reference-derived per-sample scale factor

Usage

wrangle_validation_data(
  dataset_name,
  threshold,
  use_cpm,
  testing = FALSE,
  hkg_list = NULL
)

Arguments

dataset_name	short name of validation data set to use (e.g. Barlow)
threshold	mean count lower limit for feature inclusion
use_cpm	flag indicating whether or not to convert observed counts to counts per million (CPM)
testing	flag indicating whether or not to subsample for (quick) testing
hkg_list	optional housekeeping gene list; test spike-in abundances against the abundances of these genes, if present

Value

absolute, relative (observed) abundances and feature names after filtering out very low abundance features

kimberlyroche/codaDE documentation built on May 11, 2022, 12:40 a.m.