kraken2

[2.17.1] - 2025-11-24

Changed

• Fixed an issue causing merge on multi-database classification to fail silently when using one thread
• Removed libpropfiler as a linker target
• Fixed installation error on MacOS

[2.17.0] - 2025-11-04

Changed

• The release version for kraken2 has been updated to 2.17.0 to resolve an issue created by an errand tag attached to prior release.

Added

• Added initial support for classifying reads across multiple NCBI databases

Fixed

• Fixed memory related issues in blast_to_fasta program
• Fixed an issue causing classify to report domain-lev...

[2.1.6] - 2025-07-08

Changed

• Updated GTDB version from 220 to 226

Added

• Added BLAST files to FASTA convertor, this currently only works for nucleotides
• Added support to k2 for downloading and processing core_nt, nt, env_nt and viral_nt BLAST databases
• Added --blast-volumes option for allowing users the ability to download specific volumes
• Added `--gtdb-s...

Added

• Added experimental support for running the classifier as a daemon. The classifier daemon will persist any database that it has loaded allowing users to save time when running multiple samples on the same large database. This feature is currently only available with the k2 wrapper by specifying the --use-daemon option when running k2 classify.

  Example: `k2 cla...

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...