TableInfo: ncbi_taxonomy.tsv - nih-cfde/published-documentation GitHub Wiki

This table must not be manually created. Users should skip this, and all other tables marked "Built by script" in this summary, preparing only the rest of their datapackage's TSV files (those marked "Prepared by submitter") for submission. Once the "Prepared by submitter" tables are ready, users should then use the C2M2 submission prep script to automatically generate this table (and the other "Built by script" tables) using the information in the "Prepared by submitter" tables.

The ncbi_taxonomy.tsv table will have as many rows as the number of unique NCBI Taxon IDs appearing in the taxonomy_id column of subject_role_taxonomy.tsv.

Field	Field Description	Required?	Field Value Type	Extra Info
id	An NCBI Taxonomy Database ID	Required	string	NCBI Taxonomy Browser --- Note formatting: be sure to prefix numeric taxon IDs with "NCBI:txid" --- Example (for "9606"): NCBI:txid9606
clade	The phylogenetic level (e.g. species, genus) assigned to this taxon	Required	string	Examples: species, genus, order
name	A short, human-readable, machine-read-friendly label for this taxon	Required	string
description	A human-readable description of this taxon	Optional	string
synonyms	A list of synonyms for this taxon as identified by the NCBI metadata	Optional	JSON array of strings	provide empty JSON array [] if value is null