Test biological identifiers

A convenience wrapper over check_id() that returns only the verdict.

Usage

is_valid_id(
  x,
  source_db,
  how = "pattern",
  species = NULL,
  version = NULL,
  refresh = FALSE
)

x: A vector of identifiers. Coerced to character.
source_db: Source key, for example "mondo". See sources().
how: Checking mode: "pattern" (offline, shape only), "cache" (offline existence against a snapshot), "remote" (live existence against the source API), or "existence" (cache when a snapshot is available for version, otherwise remote, or pattern for a source with no resolver).
species: Optional species context, echoed in the result. A name such as "homo_sapiens" or an NCBI taxon id such as 9606. When given, an id of a different species is invalid: Ensembl is checked from its id prefix (in pattern and remote modes), and UniProt from the entry's organism in remote mode. A species outside the source map is not checked.
version: Snapshot version. In cache mode it selects the snapshot and defaults to the latest installed one when omitted; it selects the snapshot for existence mode; ignored in pattern and remote modes.
refresh: In remote checks, skip any cached response and refetch. Ignored by the offline modes.

A logical vector, one element per element of x.

is_valid_id(c("MONDO:0005148", "mondo:5148"), source_db = "mondo")
#> [1]  TRUE FALSE