This function retrieves metadata for the given genome IDs.

This function retrieves metadata for the given genome IDs.

.extractGenomeData(
  base_dir,
  batch_genome_IDs,
  filter_type,
  amr_fields,
  microtrait_fields,
  image = "danylmb/bvbrc:5.3",
  verbose = TRUE
)

Arguments

base_dir

Character. Project root.

batch_genome_IDs

Vector of genome IDs.

filter_type

Character. Either "AMR" or "microTraits" (sets data fields).

amr_fields

Character. Attributes (comma-separated) for AMR metadata.

microtrait_fields

Character. Attributes for microtraits.

image

Character.

verbose

Logical.

Value

A character vector containing the retrieved genome data.