Reference

Reference documentation for report and file formats, the command-line interface (CLI), and REST API.

Command line tool reference

NCBI Datasets Command line interface (CLI) tool reference

Annotation file formats

Formats of Annotation Files available in NCBI Datasets Data Packages

Report schemas

NCBI Datasets Data Package report formats

Available genomes

Which genomes are available through NCBI Datasets and which genomes are excluded

GenBank (GCA) and RefSeq (GCF) genome assemblies

Understanding the differences between GenBank (GCA) and RefSeq (GCF) genome assemblies

jq cheatsheet for genome metadata

jq cheatsheet for parsing genome metadata from the datasets CLI summary command

Mac Safari zip archive bug

Workaround to avoid Mac Safari zip archive bug

OpenAPI 3.0 REST API

NCBI Datasets REST API

Generated October 22, 2021