# Install autocycler with Homebrew Tool for generating consensus long-read assemblies for bacterial genomes. Version 0.6.2 via Homebrew; verified from local package data. ## 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 - **Version:** 0.6.2 - **Source summary:** Tool for generating consensus long-read assemblies for bacterial genomes - **Homepage:** - **Repository:** - **Generated:** 2026-08-03T19:37:03+00:00 ## Executables - autocycler (alias) ## Install behavior - Bottle: not available ## Freshness - Page generated: 2026-08-03 - Package-manager version: 0.6.2 ## 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 ## Combined YAML source View the package source record on GitHub. [combined/autocycler.yml](https://github.com/mxcl/pkgdb/blob/main/combined/autocycler.yml) ## Sources - pkg.so package database - Geiger risk classifier - curated package history - pkgdb category and tag curation - cross-ecosystem install command graph