菜单
IntegronFinder — detect integrons (intI, attC, cassettes) in bacterial genomes/assemblies, including AMR cassette context. Use for integron-focused MGE mining. Upstream: https://github.com/gem-pasteur/Integron_Finder. Route via microbial-mining; pair with rgi / mobileog / genomad.
默认使用会先检查来源的 Prompt；你也可以切换为直接命令，或下载本地副本。
决定是否安装前，请先阅读 SKILL.md，以及 SkillsMP 当前展示的配套文件。
用 Codex 或 Claude 帮你安装 复制这段 Prompt，粘贴到 Codex、Claude 或其他助手里，让它检查 Skill 页面并帮你完成安装。
直接命令不会经过审查 Prompt；运行前请先检查来源。
npx skills add https://github.com/PKU-EMBL/Metagenomics-Skills --skill integronfinder命令会保持在同一行。复制前请横向滚动并检查完整内容。
想先保存到本地？可下载 SkillsMP 当前能够提供的文件。
基于 SOC 职业分类
正在显示 SKILL.md
| name | integronfinder |
| description | IntegronFinder — detect integrons (intI, attC, cassettes) in bacterial genomes/assemblies, including AMR cassette context. Use for integron-focused MGE mining. Upstream: https://github.com/gem-pasteur/Integron_Finder. Route via microbial-mining; pair with rgi / mobileog / genomad. |
| license | MIT |
| category | analysis-tools |
| tags | ["IntegronFinder","integron","MGE","AMR","cassette","genome-mining"] |
| upstream | https://github.com/gem-pasteur/Integron_Finder |
| stage | mining |
Upstream: gem-pasteur/Integron_Finder
Néron, B. et al. IntegronFinder 2.0: Identification and Analysis of Integrons across Bacteria, with a Focus on Antibiotic Resistance in Klebsiella. Microorganisms 10, 700 (2022). https://doi.org/10.3390/microorganisms10040700
Original: Cury, J. et al. Identification and analysis of integrons and cassette arrays in bacterial genomes. Nucleic Acids Res. 44, 4539–4550 (2016). https://doi.org/10.1093/nar/gkw319
See also docs/references.md.
Integrons capture and express gene cassettes (often AMR). IntegronFinder
locates complete/CALIN/In0-style architectures. Intersect cassette genes with
rgi / deeparg for resistome context; do not equate integron presence with
expression.
# bioconda / pip per upstream; example
integron_finder genome.fna --outdir integron_out
# optional functional annotation flags — follow IntegronFinder 2 docs
Integrons / cassettes?
├─ Yes → integronfinder
├─ IS elements → isescan
├─ MGE protein machinery → mobileog
├─ Plasmid/virus contigs → genomad
└─ ARG catalogue → rgi (± deeparg)
rgi · deeparg · mobileog · isescan · genomad · microbial-mining ·
tool-selection