get_adjusted_counts_for_unwanted_variation_bulk: Get adjusted count for some batch effect

In tidybulk: Brings transcriptomics to the tidyverse

Description

Get adjusted count for some batch effect

Usage

get_adjusted_counts_for_unwanted_variation_bulk(
  .data,
  .formula,
  .sample = NULL,
  .transcript = NULL,
  .abundance = NULL,
  log_transform = TRUE,
  ...
)

Arguments

.data	A tibble
.formula	a formula with no response variable, of the kind ~ factor_of_interest + batch
.sample	The name of the sample column
.transcript	The name of the transcript/gene column
.abundance	The name of the transcript/gene abundance column
log_transform	A boolean, whether the value should be log-transformed (e.g., TRUE for RNA sequencing data)
...	Further parameters passed to the function sva::ComBat

Value

A tibble with adjusted counts

tidybulk documentation built on April 7, 2021, 6 p.m.