createMtblsSampleFile: Writing template for Metabolights sample file

In michaelwitting/genedataRutils: Collection of utility functions to work with .gda files in R

Description

createMtblsSampleFile Exports data read from a .gda file to a Metabolights sample file. A study ID is required to generate consistent files. To be used this function requires the following column annotations to be present: "Source C", "Sample C", "Assay C", "File C", "Sample Type C"

Usage

createMtblsSampleFile(
  x,
  study_id = "MTBLSXXXX",
  study_factors = NA,
  metadata = list(organism_characteristics = NA, organism_source_ref = NA,
    organism_term_access = NA, organism_part_characteristics = NA,
    organism_part_source_ref = NA, organism_part_term_access = NA,
    variant_characteristics = NA, variant_source_ref = NA, variant_term_access = NA,
    protocol_ref = NA)
)

Arguments

x	list List with data read from .gda file
study_id	character Study ID from Metabolights or place holder (default is MTBLSXXXX)
study_factors	character Potentially present study factors
metadata	list Additional metadata, such a organism etc. #'

Author(s)

Michael Witting

michaelwitting/genedataRutils documentation built on April 30, 2021, 5:11 p.m.