write_metabolomics_releases: Write metabolomics data release

In MoTrPAC/MotrpacBicQC: QC/QA functions for the MoTrPAC community

Write metabolomics data release

Description

Write out metabolomics data releases. Doesn't check whether data has been submited according to guidelines

Usage

write_metabolomics_releases(
  input_results_folder,
  cas,
  folder_name = "motrpac_release",
  folder_root = NULL,
  version_file = "v1.0",
  verbose = TRUE
)

Arguments

input_results_folder	(char) Path to the PROCESSED_YYYYMMDD folder
cas	(char) Chemical Analytical Site code (e.g "umichigan")
folder_name	(char) output files name. Must have a .yaml extension.
folder_root	(char) absolute path to write the output files. Default: current directory
version_file	(char) file version number (v#.#)
verbose	(logical) TRUE (default) shows messages

Value

bic release folder/file structure ⁠PHASE/OMICS/TCODE_NAME/ASSAY/⁠ and file names, including:

• motrpac_YYYYMMDD_phasecode_tissuecode_omics_assay_file-details.txt where files-details can be:

• named-experimentalDetails.txt

• named-metadata-metabolites.txt

• metadata-samples.txt

• named-results.txt

Examples

## Not run: 
write_metabolomics_releases(input_results_folder = "/path/to/PROCESSED_YYYYMMDD/", 
cas = "umichigan")

## End(Not run)

MoTrPAC/MotrpacBicQC documentation built on Sept. 26, 2024, 11:10 a.m.