Build a Dataset submission row from a Trio object — buildDatasetSubmission • BenchHub

This helper is the first step in the new submission workflow. It does not upload anything and does not modify the existing writeCTD() path.

Usage

buildDatasetSubmission(
  trio,
  name = private_submission_dataset_name(trio),
  dataType,
  dataModality,
  technology,
  description = trio$description,
  doi = NA_character_,
  organism = NA_character_,
  tissue,
  status
)

Arguments

trio: A Trio object.
name: Dataset name for submission. Defaults to the existing Trio name, falling back to trio$dataSourceID when needed.
dataType: One of "omics" or "clinical".
dataModality: One of "genomics", "transcriptomics", "epigenomics", "proteomics", "metabolomics", "patient", or "other".
technology: Free-text technology description.
description: Dataset description. Defaults to trio$description if present.
doi: DOI reference for the dataset.
tissue: Free-text tissue label.
status: One of "healthy", "diseased", "developmental", or "other".

Value

A one-row data.frame matching the proposed Dataset table schema. datasetID is left as NA because it is expected to be generated by the submission backend.