v2.1.4

Documentation for k2 has been added to the manual -- https://github.com/DerrickWood/kraken2/wiki/Manual#introducing-k2

• Replace FASTA/Q parser with kseq resulting in significantly faster run-times when estimating database capacity
• Add memory-mapping support to dump_table (kraken2-inspect)
• Add support for many threads to dump_table (kraken2-inspect)
• Add support for downloading accessions by project ID, taxon ID or accession number to k2.
  This feature makes use of the NCBI API https://www.ncbi.nlm.nih.gov/datasets/docs/v2/api/rest-api/
• Add support for building GTDB databases
• Speed up decompression in k2 by using zlib instead of gzip making k2 competitive with native gzip binaries
• Change the way accessions are downloaded when using NCBI API so that downloads are more reliable
• Update SILVA from 138.1 to 138.2

v2.1.3

This release features changes to improve efficiency of low complexity masking and various bug fixes.

v2.1.2

This release fixes a bug with classification when k-mer length is equal to minimizer length, and provides new retry behavior for the kraken2-build script's --use-ftp flag to make downloading more robust.

v2.1.1

This release fixes bugs relating to compilation with GCC 10 and to building the standard database.

v2.1.0

This is the first non-beta release of Kraken 2. This version includes bug fixes and revisions to the build process to aid in making Kraken 2 databases more easily reproducible. Version 2.1.0 also introduces a new experimental feature to report the number of distinct minimizers associated with a taxon in the sequencing data, similar to the functionality found in the KrakenUniq program. Please see CHANGELOG.md for more details on version-specific changes and the operating manual section on "Distinct minimizer count information" to learn how to use the new feature.

v2.0.9-beta

Includes updates to fix bugs and revisions to download scripts. Please see CHANGELOG.md for more details.

v2.0.8-beta

This version includes various fixes, including adaptation to NCBI file structure changes. Default parameters for the k-mer length, minimizer length, and number of minimizer spaces have also changed in this version. Please see CHANGELOG.md for more details.

v2.0.7-beta

Version 2.0.7 includes the option to set a limit to database size while building, along with many other fixes and updates. Please see the CHANGELOG.md file for more details.

v2.0.6-beta

Initial public (beta) release of Kraken 2.