# Install autocycler with Homebrew Tool for generating consensus long-read assemblies for bacterial genomes. Version 0.6.2 via Homebrew; verified 2026-04-14. ## Install ```sh sudo av install brew:autocycler ``` Additional install commands: ### macOS - Homebrew (100%): ```sh brew install autocycler ``` Evidence: local Homebrew formula metadata ## Package facts - **Package key:** brew:autocycler - **Package manager:** Homebrew - **Package manager page:** - **Version:** 0.6.2 - **Source summary:** Tool for generating consensus long-read assemblies for bacterial genomes - **Homepage:** - **Repository:** - **Upstream docs:** - **License:** GPL-3.0-or-later - **Source archive:** - **Last updated:** 2026-04-14T10:27:47Z - **Generated:** 2026-07-08T07:18:31+00:00 ## Executables - autocycler (cli) - autocycler (alias) ## Build dependencies - rust ## Install behavior - Post-install hook: not defined - Bottle: available on arm64_linux, arm64_sequoia, arm64_sonoma, arm64_tahoe, sonoma, x86_64_linux ## Freshness - Page generated: 2026-07-08 - Package-manager version: 0.6.2 - Package-manager updated: 2026-04-14 - Local data: ok - Upstream repository: https://github.com/rrwick/Autocycler - Upstream latest detected: v0.6.2 (current) ## Project history and usage Autocycler is a Rust command-line tool for generating consensus long-read bacterial genome assemblies from multiple alternative assemblies. ### Project history The GitHub repository was created on 2023-11-10 and the first public GitHub release, v0.1.0, was published on 2024-11-11. The README describes Autocycler as the successor to Trycycler and says most users should prefer Autocycler over Trycycler. In 2025, Wick, Howden and Stinear published the Autocycler paper in Bioinformatics, giving the project a formal citation path for research use. By 2026 the project had reached v0.6.2, published on 2026-04-14. ### Adoption history Autocycler's adoption path is academic and bioinformatics-oriented: the README asks research users to cite the Bioinformatics paper, the wiki provides workflows for automated and manually curated assemblies, and the installation docs mention Bioconda in addition to pre-built binaries. Its scope is intentionally narrower than general genome assembly: the wiki says it aims to produce complete bacterial genome assemblies and requires input assemblies that are mostly or ideally all complete. ### How it is used The wiki describes a multi-step workflow: subsample reads, generate several input assemblies with supported long-read assemblers, compress assemblies into a unitig graph, cluster contigs, trim and resolve clusters, then combine resolved clusters into consensus_assembly.fasta. For minimal setup, the very quick start points users at a conda environment and an automated Bash pipeline that runs the full process with reads.fastq.gz, thread count and parallel job count. ### Why package nerds care Autocycler is notable for packaging a modern Rust bioinformatics executable whose usefulness depends on a surrounding toolchain of long-read assemblers. The binary itself is standalone, but real-world workflows often rely on conda environments, Dockerfiles or pipeline scripts to assemble the full stack. For package databases, it is a good example of a domain-specific CLI where the Homebrew formula exposes only one executable while the official docs point to Bioconda and custom environments for complete scientific workflows. ### Timeline - 2023: GitHub repository created on 2023-11-10. - 2024: v0.1.0 released on 2024-11-11. - 2025: Autocycler paper published in Bioinformatics. - 2026: v0.6.2 released on 2026-04-14. ### Related projects - The README identifies Trycycler as Autocycler's predecessor. - The wiki's automated workflow references long-read assemblers including canu, flye, metamdbg, miniasm, necat, nextdenovo, plassembler and raven. ### Sources - - - - - ## Security Notes narrow executable package without higher-risk signals. - **Geiger risk:** green / low - narrow executable package without higher-risk signals ## Source Database Details - **Source Database:** Homebrew formula API - **Tap:** homebrew/core - **Full Name:** autocycler - **Version Scheme:** 0 - **Revision:** 0 - **Head Version:** HEAD - **Bottle Stable Root URL:** - **Deprecated:** no - **Disabled:** no - **Keg Only:** no - **URL Keys:** head, stable ## Related links - [Source-control packages](https://www.automicvault.com/pkg/source-control-tools/) - Belongs to a source-control command family. - [Terminal utility packages](https://www.automicvault.com/pkg/terminal-utilities/) - Matched terminal and command-line workflow metadata. - [Networking and protocol packages](https://www.automicvault.com/pkg/networking-protocol-tools/) - Matched network, protocol, or remote-service metadata. - [Scientific computing packages](https://www.automicvault.com/pkg/scientific-computing-tools/) - Matched scientific computing metadata. - [rust](https://www.automicvault.com/pkg/brew/rust/) - Build dependency declared by Homebrew. - [bedtools](https://www.automicvault.com/pkg/brew/bedtools/) - Shares av.db curated category or tags: bioinformatics, cli, genome, science. - [abpoa](https://www.automicvault.com/pkg/brew/abpoa/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [abricate](https://www.automicvault.com/pkg/brew/abricate/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [abyss](https://www.automicvault.com/pkg/brew/abyss/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [adapterremoval](https://www.automicvault.com/pkg/brew/adapterremoval/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [alevin-fry](https://www.automicvault.com/pkg/brew/alevin-fry/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [any2fasta](https://www.automicvault.com/pkg/brew/any2fasta/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [augustus](https://www.automicvault.com/pkg/brew/augustus/) - Shares av.db curated category or tags: bioinformatics, cli, science. - [polypolish](https://www.automicvault.com/pkg/brew/polypolish/) - Local package facts share a topical domain. Shared terms: assemblies, assembly, bioinformatics, cli, genome. - [flye](https://www.automicvault.com/pkg/brew/flye/) - Local package facts share a topical domain. Shared terms: assembly, bioinformatics, cli, genome, long. - [badread](https://www.automicvault.com/pkg/brew/badread/) - Local package facts share a topical domain. Shared terms: bioinformatics, cli, long, read, science. ## Combined YAML source View the package source record on GitHub. [combined/autocycler.yml](https://github.com/automic-vault/db/blob/main/combined/autocycler.yml) ## Sources - Nucleus package database - Geiger risk classifier - package-page enrichment - curated package history - package version freshness - av.db category and tag curation - package relationship graph - cross-ecosystem install command graph