Download Latest Version bowtie2-2.5.5-linux-x86_64.zip (136.1 MB)
Email in envelope

Get an email when there's a new version of Bowtie 2

Home / v2.5.5
Name Modified Size InfoDownloads / Week
Parent folder
bowtie2-2.5.5-sra-linux-x86_64.zip 2026-03-07 151.2 MB
bowtie2-2.5.5-sra-linux-aarch64.zip 2026-03-07 98.7 MB
bowtie2-2.5.5-mingw-x86_64.zip 2026-03-07 56.5 MB
bowtie2-2.5.5-macos-arm64.zip 2026-03-07 16.0 MB
bowtie2-2.5.5-linux-x86_64.zip 2026-03-07 136.1 MB
bowtie2-2.5.5-linux-aarch64.zip 2026-03-07 91.2 MB
README.md 2026-02-17 464 Bytes
v2.5.5 source code.tar.gz 2026-02-17 10.6 MB
v2.5.5 source code.zip 2026-02-17 10.8 MB
Totals: 9 Items   571.2 MB 0

Version 2.5.5 - Feb 16, 2026

bowtie2

* Added `-d` command line option that makes `-a`/`-k`
  deterministic in the way alignments are reported. This
  deterministic mode runs much significantly faster than `-a` and
  consumes less memory.  It not yet strictly better than `-a` when
  considering alignments found. (PR #520, 521)
* Add support for selecting AVX version at runtime on x86_64/amd64
  CPUs. (PR #515)
Source: README.md, updated 2026-02-17