使用 Homebrew, apt 安装 fastani

项目链接

• 主页

命令和别名

• fastANI

项目历史

The official FastANI repository was created in 2017. FastANI uses Mashmap as a MinHash-based sequence mapping engine and follows the broad workflow of earlier ANI methods while avoiding their expensive sequence-alignment step.

The associated 2018 Nature Communications paper introduced FastANI as a scalable ANI method and used it to analyze more than 90,000 prokaryotic genomes. The study reported accuracy comparable to alignment-based ANI methods in the intended similarity range with speedups of two to three orders of magnitude.

采用历史

FastANI became a practical command-line component in microbial genomics because it accepts both complete and draft assemblies and supports one-to-one, one-to-many, and many-to-many comparisons. The supplied package metadata shows distribution through Homebrew, Debian, and Ubuntu, complementing upstream source builds and release binaries.

使用方式

Users provide a query genome and reference genome, or text files listing multiple query and reference assemblies. FastANI writes tab-delimited ANI results and can optionally generate a lower-triangular PHYLIP-style matrix.

The official README recommends checking assembly quality and notes that pairs far below roughly 80 percent ANI are outside FastANI's useful nucleotide-level range. It also documents multi-threading and a small query/reference asymmetry in pairwise estimates.

为什么软件包爱好者会关心

FastANI matters to package users because it turns a computationally expensive comparative-genomics method into a scriptable executable suitable for large batches. Its small CLI surface, release binaries, and Linux and macOS package availability make it easy to place inside reproducible genome-classification pipelines.

时间线

• 2017: The official FastANI GitHub repository was created.
• 2018: The FastANI method and analysis of more than 90,000 prokaryotic genomes were published in Nature Communications.
• 2023: FastANI v1.34 was published through the official GitHub releases feed.

Related projects

• Mashmap is the approximate mapping engine used by FastANI.
• Mash is another MinHash-based genome-distance tool discussed in the FastANI paper, while BLAST-based ANI solvers are the slower alignment-based comparison point.

来源

• https://github.com/ParBLiSS/FastANI
• https://github.com/ParBLiSS/FastANI/releases
• https://www.nature.com/articles/s41467-018-07641-9
• source_facts.package-manager