Function reference • MotrpacBicQC

All functions
`assay_abbr`	assay abbreviations
`assay_codes`	Motrpac assay codes
`assay_order`	assay order
`bic_animal_tissue_code`	BIC Tissue Code and Name
`check_crossfile_olink_validation()`	Cross-validate OLINK files
`check_failedsamples()`	check failed samples file for reported missing vial label ids
`check_manifest_rawdata()`	check rawfiles between manifest and metabolite_sample matches
`check_metadata_metabolites()`	check metadata metabolites
`check_metadata_phase_file()`	check metadata phase file
`check_metadata_proteins()`	Check olink metadata proteins file
`check_metadata_samples()`	check metadata samples
`check_metadata_samples_olink()`	check olink metadata samples file
`check_missing_values()`	Check for Missing Values in a Data Frame Column
`check_ratio_proteomics()`	check proteomics ratio file
`check_results()`	check results
`check_results_olink()`	Check olink results
`check_rii_proteomics()`	check proteomics reported ion intensity file
`check_vial_metadata_proteomics()`	check proteomics vial metadata file
`check_viallabel_dmaqc()`	Validate vial labels from DMAQC
`combine_metabolomics_batch()`	Combines all files from a Metabolomics batch
`create_folder()`	Create folder
`dl_read_gcp()`	Download and Read File from Google Cloud Storage
`filter_required_columns()`	filter required columns only
`generate_phase_details()`	Generate the phase detail for submissions
`get_and_validate_mdd()`	Get and Validate the Entire RefMet Database from Metabolomics Workbench
`get_full_path2batch()`	Get full path to the batch folder
`group_abbr`	group abbreviations
`group_cols`	group colors
`load_metabolomics_batch()`	Load metabolomics batch
`load_olink_batch()`	Load and Process Olink Batch Data
`load_proteomics()`	Load Proteomics batch
`merge_all_metabolomics()`	Merge all metabolomics files
`merge_metabolomics_metadata()`	Merge metabolomics metadata named and unnamed
`merge_phenotype_metabolomics()`	Merge phenotypic and metabolics results
`metabolomics_data_dictionary`	Metabolomics data dictionary
`metadata_metabolites_named`	Metadata Metabolites test dataset for NAMED metabolites
`metadata_metabolites_unnamed`	Metadata Metabolites test dataset for UNNAMED metabolites
`metadata_sample_named`	Metadata Sample test dataset for NAMED metabolites
`metadata_sample_unnamed`	Metadata Sample test dataset for UNNAMED metabolites
`open_file()`	open files
`phenotypes_pass1a06_short`	Motrpac Phenotypes PASS1A 6 Months
`plot_basic_metabolomics_qc()`	Plot Basic Metabolomics QC charts
`plot_basic_olink_qc()`	Plot Basic OLINK QC charts
`proteomics_plots_rii()`	QC Plot of proteomics reporter ion intensity data
`remove_empty_columns()`	remove empty columns
`remove_empty_rows()`	remove empty rows in data frame
`results_named`	Results test dataset for NAMED metabolites
`results_unnamed`	Results test dataset for UNNAMED metabolites
`set_phase()`	Set the phase to be validated.
`sex_abbr`	sex abbreviations
`sex_cols`	sex colors
`tissue_abbr`	tissue abbreviations
`tissue_cols`	tissue colors
`tissue_order`	tissue order
`validate_assay()`	extract ASSAY from input folder path
`validate_batch()`	extract BATCH_YYYYMMDD folder
`validate_cas()`	validate cas code
`validate_dates_times()`	Validate date-time format in a data frame column
`validate_lc_column_id()`	Validate 'lc_column_id' column
`validate_metabolomics()`	Validate a Metabolomics submission
`validate_na_empty()`	Validate Column for NA and Empty Values
`validate_olink()`	Validate Olink Data
`validate_phase()`	Extract PHASE from input folder path
`validate_processFolder()`	extract PROCESSED_YYYYMMDD folder from input folder path
`validate_proteomics()`	Validate a Proteomics submissions
`validate_refmetname()`	Validate refmet_name
`validate_tissue()`	extract and validate TISSUE CODE from input folder path
`validate_two_phases()`	validate a phase with two phases (pass1a and 1c)
`validate_uniprot_ids_with_uniprot()`	Validate UniProt IDs
`validate_yyyymmdd_dates()`	Validate YYYY-MM-DD Dates in a Data Frame
`write_metabolomics_releases()`	Write metabolomics data release
`write_olink_releases()`	Write olink data release
`write_proteomics_releases()`	Write proteomics data release

Reference

All functions