v18.23.0

Genome

• New column: Annotation Pipeline — The annotation pipeline is now available as a selectable column in the results table and is searchable via the Search within results box.

Gene

• New column: References in Gene Ontology tables — Gene Ontology tables now include a References column with direct links to related publications in PubMed.

Taxonomy

• New levels display in the taxonomy browser — Users can now expand the taxonomy tree up to three levels below the currently visible ranks, making it easier to explore deeper parts of the taxonomy without manually clicking through each node.

Virus

• Bug fix: - Virus report GET request with multiple accessions — Resolved an issue where the virus report GET request would fail when multiple accessions were provided.

v18.22.1

Command-line Tool

• Fixed a retry bug associated with #568, reported by @phuongbigbig.

Gene Reports

• Fixed a bug in the gene product report (#569), reported by @michtrofimov.

v18.21.0

Command-line tool

• Added RNA sequence files to the genome download --include all flag.
• Fixed a bug with gene downloads reported by SaimMomin12 in Issue 566

API Documentation

• Improved display of deprecated endpoints

v18.20.0

Genome Annotation Table

• Fixed an issue that prevented the Genome Annotation Table from loading correctly.

Taxonomy

• Enhanced the filtered subtree endpoint to include the following additional fields:
  • scientific_name
  • curator_common_name
  • rank

v18.19.0

Taxonomy API endpoints

• The /taxonomy/taxon/{taxons}/filtered_subtree endpoint now supports new filters for taxonomic levels and extinct organisms. A levels_to_return filter has been added to control the depth of the taxonomic subtree, accepting a range of 1 to 5. The filter_extinct, can be used to exclude extinct organisms from the results.

v18.18.0

Genome annotation table

• Fixed an issue that caused pagination errors when browsing results with product length data.

Organelle

• Improved the accuracy of organelle queries.

v18.17.1

Genome services

• Fixed a bug with genome retrieval by BioProject accession.
• Genome download CLI: Added new --all flag to include all data files when downloading genomes via command line.

Documentation

• Added new documentation for Gene FTP files.

v18.16.0

Command-line tool

• Fixed rehydration error messaging to provide clearer feedback.

Documentation

• Added documentation on NCBI Taxonomy history and recent updates to policies.
• Improved date format examples in REST API documentation date examples

v18.15.0

Command-line tool

• Users now receive a clearer error message when a query returns no assembled genomes (Issue 549).

Maintenance

• Enhanced reliability of backend services.

v18.14.0

Genome Table

• Fixed an issue with the annotation filter in the Genome Table.

Documentation

• Added documentation describing how representative proteins are selected for the Ortholog Table.
  https://www.ncbi.nlm.nih.gov/datasets/docs/v2/data-processing/gene-processing/gene/#choosing-a-representative-protein

Taxonomy

• Added a license URL to the Taxonomy image metadata endpoint.
  https://www.ncbi.nlm.nih.gov/datasets/docs/v2/api/rest-api/#get-/taxonomy/taxon/-taxon-/image/metadata