filter_exprs_replicated_in_some_subgroup: Filter features with replicated expression in some subgroup

In bhagwataditya/importomics: Unified statistal Modeling of Omics Data

Filter features with replicated expression in some subgroup

Description

Filter features with replicated expression in some subgroup

Usage

filter_exprs_replicated_in_some_subgroup(
  object,
  subgroupvar = "subgroup",
  assay = assayNames(object)[1],
  comparator = if (contains_ratios(object)) "!=" else ">",
  lod = 0,
  nsample = 2,
  nsubgroup = 1,
  verbose = TRUE
)

Arguments

object	SummarizedExperiment
subgroupvar	subgroup svar
assay	string
comparator	'>' or '!='
lod	number: limit of detection
nsample	number
nsubgroup	number
verbose	TRUE or FALSE

Value

Filtered SummarizedExperiment

Examples

file <- system.file('extdata/atkin.metabolon.xlsx', package = 'autonomics')
object <- read_metabolon(file)
object %<>% filter_exprs_replicated_in_some_subgroup()
filter_exprs_replicated_in_some_subgroup(object, character(0))
filter_exprs_replicated_in_some_subgroup(object, NULL)

bhagwataditya/importomics documentation built on April 20, 2024, 11:19 p.m.