merge_sfile {autonomics}R Documentation

Merge sample/feature file

Description

Merge sample/feature file

Usage

merge_sfile(
  object,
  sfile = NULL,
  by.x = "sample_id",
  by.y = NULL,
  stringsAsFactors = TRUE,
  verbose = TRUE
)

merge_ffile(
  object,
  ffile = NULL,
  by.x = "feature_id",
  by.y = NULL,
  stringsAsFactors = TRUE,
  verbose = TRUE
)

Arguments

object

SummarizedExperiment

sfile

sample file path

by.x

object mergevar

by.y

file mergevvar

stringsAsFactors

TRUE or FALSE

verbose

TRUE (default) or FALSE

ffile

ffile path

Value

SummarizedExperiment

Examples

require(magrittr)
file <- download_data('billing19.proteingroups.txt')
select <-  c('E00','E01', 'E02','E05','E15','E30', 'M00')
select %<>% paste0('_STD')
object <- read_proteingroups(file, select_subgroups = select, plot=FALSE)
sfile <- paste0(tempdir(),'/', basename(tools::file_path_sans_ext(file)))
sfile %<>% paste0('.samples.txt')
invisible(create_sfile(object, sfile))
merge_sfile(object, sfile)

[Package autonomics version 1.2.0 Index]