keep_variable,SummarizedExperiment-method {tidybulk}R Documentation

keep_variable

Description

keep_variable

Usage

## S4 method for signature 'SummarizedExperiment'
keep_variable(
  .data,
  .sample = NULL,
  .transcript = NULL,
  .abundance = NULL,
  top = 500,
  log_transform = TRUE
)

Arguments

.data

A 'tbl' formatted as | <SAMPLE> | <TRANSCRIPT> | <COUNT> | <...> |

.sample

The name of the sample column

.transcript

The name of the transcript/gene column

.abundance

The name of the transcript/gene abundance column

top

Integer. Number of top transcript to consider

log_transform

A boolean, whether the value should be log-transformed (e.g., TRUE for RNA sequencing data)

Value

A 'SummarizedExperiment' object

[Package tidybulk version 0.99.23 Index]