macOS
Homebrewverified · 100%
brew install genometoolslocal Homebrew formula metadata
brew
Install genometools with Homebrew, apt
Versatile open source genome analysis software. Version 1.6.6 via Homebrew; verified from local package data.
install
Additional install commands
Linux
Debian aptverified · 92%
sudo apt install genometoolsDebian stable package indexes · genometools · source: deb.debian.org
overview
Package summary
Versatile open source genome analysis software
Project links
Commands and aliases
- genometools-config
history
Project history and usage
GenomeTools is an open source genome informatics system centered on a single gt command and the libgenometools C library. It collects command-line tools, APIs, and published bioinformatics components for structured genome annotations, sequence analysis, annotation visualization, and related workflows.
Project history
The project archive shows public source tarballs beginning with the 0.6.x series in 2007 and a 1.0.0 release later that year. The official overview describes the system as a collection of bioinformatics tools combined into one binary and based on libgenometools, with development credited to Gordon Gremme, Sascha Steinbiss, Stefan Kurtz, and contributors at the University of Hamburg's Genome Informatics group.
The 2013 GenomeTools publication framed the project as a comprehensive software library for efficient processing of structured genome annotations. Around that core, the official site lists separately published components such as LTRharvest, Tallymer, AnnotationSketch, LTRdigest, GtEncseq, Readjoiner, and related tools built on the same library.
Adoption history
GenomeTools gained significance through bioinformatics publications and through its packaging as a reusable command-line suite rather than a single-purpose script. Its official site points to manuals, manpage-style tool documentation, a C API, Lua-based gtscript documentation, and a GFF3 validator, which made it useful both for end users and developers building genome-annotation workflows.
How it is used
Practitioners use GenomeTools for tasks such as validating and processing GFF3, drawing genome annotations, finding LTR retrotransposons, counting or indexing sequence features, assembling reads, and scripting analyses around the gt command. Developers can use libgenometools and the documented C API when command-line composition is not enough.
Why package nerds care
GenomeTools is a good example of scientific software that package managers preserve because reproducible research workflows depend on exact command-line behavior, compiled C libraries, and long-lived manual pages.
Timeline
- 2007: the project archive listed the 0.6.x series and 1.0.0 tarballs.
- 2008: the official site listed published GenomeTools components including LTRharvest and Tallymer.
- 2013: the GenomeTools software-library paper appeared in IEEE/ACM Transactions on Computational Biology and Bioinformatics.
- 2021: the project archive listed the 1.6.2 tarball.
Related projects
- Related GenomeTools components and adjacent projects include libgenometools, gt, AnnotationSketch, LTRharvest, LTRdigest, Tallymer, GtEncseq, Readjoiner, GenomeThreader, and GFF3 validation tooling.
Sources
security posture
Risk level: green
narrow executable package without higher-risk signals.
Risk classifier
green risk · low confidence · appliance
Why
- narrow executable package without higher-risk signals
Signals
- metadata:no-higher-risk-signals
Install behavior
- No Homebrew post-install hook is recorded in formula metadata.
- Homebrew bottle metadata is available for 6 platform targets.
- Installs with 6 runtime dependencies.
- Build metadata lists 2 build dependencies.
Recommended review
Before unattended agent use, check whether the tool reads plaintext credentials, writes remote state, publishes artifacts, or shells out to plugins.
executables
Installed executables
| Command | Kind | Exposure | Note |
|---|---|---|---|
genometools-config | cli | global executable |
freshness
Version and freshness
These signals separate page generation age, package-manager activity, and upstream release comparison. Version lag is warned only when an evidence URL and comparable versions are present.
page generated2026-07-08
manager version1.6.6
manager updated
local dataok
upstreamcurrent
latest detectedv1.6.6
https://github.com/genometools/genometools
- infoNo package-manager update timestamp was available.low confidence
install metadata
Package metadata
| Package key | brew:genometools |
|---|---|
| Version | 1.6.6 |
| Package manager | Homebrew |
| Package manager page | https://formulae.brew.sh/formula/genometools |
| Homepage | https://genometools.org/ |
| Repository | https://github.com/genometools/genometools |
| Upstream docs | https://genometools.org/documentation.html |
| License | ISC |
| Source archive | https://github.com/genometools/genometools/archive/refs/tags/v1.6.6.tar.gz |
| Dependencies | cairo, gettext, glib, harfbuzz, pango, tre |
| Build dependencies | pkgconf, python@3.14 |
| Uses from macOS | bzip2, expat, sqlite |
| Bottle | available (on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux) |
| Homebrew post-install | not defined |
| Service | none declared |
registry facts
Source database details
| Source Database | Homebrew formula API |
|---|---|
| Tap | homebrew/core |
| Full Name | genometools |
| Version Scheme | 0 |
| Revision | 0 |
| Head Version | HEAD |
| Conflicts With |
|
| Bottle Stable Root URL | https://ghcr.io/v2/homebrew/core |
| Deprecated | no |
| Disabled | no |
| Keg Only | no |
| URL Keys |
|
source database matches
Other package-manager records
Matches are pulled from external package-manager indexes and kept separate from local Automic Vault package links.
Debian apt95%
genometools 1.6.5+ds-2.2
versatile genome analysis toolkit
sudo apt install genometools- Section: science
- Architecture: amd64
- 15 dependencies
- normalized package name match
- Matched by: Genometools
Debian apt95%
genometools-common 1.6.5+ds-2.2
shared data files for GenomeTools
sudo apt install genometools-common- Section: science
- Architecture: all
- Source Package: genometools
- 9 dependencies
- normalized package name match
- Matched by: Genometools
Debian apt95%
genometools-doc 1.6.5+ds-2.2
documentation for GenomeTools
sudo apt install genometools-doc- Section: doc
- Architecture: all
- Source Package: genometools
- normalized package name match
- Matched by: Genometools
Debian apt95%
libgenometools0-dev 1.6.5+ds-2.2
development files for GenomeTools
sudo apt install libgenometools0-dev- Section: libdevel
- Architecture: amd64
- Source Package: genometools
- 1 dependencies
- normalized package name match
- Matched by: Genometools
Debian apt95%
libgenometools0t64 1.6.5+ds-2.2
versatile genome analysis library
sudo apt install libgenometools0t64- Section: libs
- Architecture: amd64
- Source Package: genometools
- 13 dependencies
- 1 provides
- normalized package name match
- Matched by: Genometools
Debian apt95%
python3-genometools 1.6.5+ds-2.2
Python3 bindings for genometools
sudo apt install python3-genometools- Section: python
- Architecture: all
- Source Package: genometools
- 2 dependencies
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
genometools 1.6.5+ds-2.1ubuntu2
versatile genome analysis toolkit
sudo apt install genometools- Section: universe/science
- Architecture: amd64
- 15 dependencies
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
genometools-common 1.6.5+ds-2.1ubuntu2
shared data files for GenomeTools
sudo apt install genometools-common- Section: universe/science
- Architecture: all
- Source Package: genometools
- 9 dependencies
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
genometools-doc 1.6.5+ds-2.1ubuntu2
documentation for GenomeTools
sudo apt install genometools-doc- Section: universe/doc
- Architecture: all
- Source Package: genometools
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
libgenometools0-dev 1.6.5+ds-2.1ubuntu2
development files for GenomeTools
sudo apt install libgenometools0-dev- Section: universe/libdevel
- Architecture: amd64
- Source Package: genometools
- 1 dependencies
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
libgenometools0t64 1.6.5+ds-2.1ubuntu2
versatile genome analysis library
sudo apt install libgenometools0t64- Section: universe/libs
- Architecture: amd64
- Source Package: genometools
- 13 dependencies
- 1 provides
- normalized package name match
- Matched by: Genometools
Ubuntu apt95%
python3-genometools 1.6.5+ds-2.1ubuntu2
Python3 bindings for genometools
sudo apt install python3-genometools- Section: universe/python
- Architecture: all
- Source Package: genometools
- 2 dependencies
- normalized package name match
- Matched by: Genometools
source trail
Generated from repository data
This page is generated by av-web from the private package SQLite artifact built by scripts/generate-pkg-sqlite.py.
Combined YAML source
View the package source record on GitHub.
Used sources
- Geiger risk classifier
- Nucleus package database
- av.db category and tag curation
- cross-ecosystem install command graph
- curated package history
- external package-manager database matches
- package relationship graph
- package version freshness
- package-page enrichment