merge_sdata: Merge sample/feature dt

In bhagwataditya/importomics: Unified Statistical Modeling of Omics Data

Merge sample/feature dt

Description

Merge sample/feature dt

Usage

merge_sdata(
  object,
  dt,
  by.x = "sample_id",
  by.y = names(dt)[1],
  all.x = TRUE,
  verbose = TRUE
)

merge_sdt(
  object,
  dt,
  by.x = "sample_id",
  by.y = "sample_id",
  all.x = TRUE,
  verbose = TRUE
)

merge_fdata(
  object,
  dt,
  by.x = "feature_id",
  by.y = names(dt)[1],
  all.x = TRUE,
  verbose = TRUE
)

merge_fdt(
  object,
  dt,
  by.x = "feature_id",
  by.y = "feature_id",
  all.x = TRUE,
  verbose = TRUE
)

Arguments

object	SummarizedExperiment
dt	data.frame, data.table, DataFrame
by.x	string : object mergevar
by.y	string : df mergevar
all.x	TRUE / FALSE : whether to keep samples / features without annotation
verbose	TRUE / FALSE : whether to msg

Value

SummarizedExperiment

Examples

file <- system.file('extdata/atkin.metabolon.xlsx', package = 'autonomics')
object <- read_metabolon(file)
sdt(object)
sdt(merge_sdt(object, data.table(sample_id = object$sample_id,
                                    number = seq_along(object$sample_id))))

bhagwataditya/importomics documentation built on Nov. 28, 2024, 8:28 a.m.