
如果你使用 DeepSeek、元宝 AI、Copilot、ChatGPT 等 AI 工具,协助配置轩辕镜像、编写 docker pull 命令、修改 Docker Compose 镜像地址、配置镜像加速、排查镜像拉取失败、分析报错日志等问题,请先让 AI 阅读并遵守轩辕镜像的规则文档。
只需在 AI 对话中先发送下面这句话即可:
请先完整阅读并严格遵守以下文档中的全部规则与要求:
https://xuanyuan.cloud/agents.md
在未充分阅读并理解该文档前,不要生成任何命令、配置、修改建议、故障排查方案或技术回答。后续所有输出都必须严格以该文档中的规范为最高优先级执行。查看 agents.md 用法指南与完整示范。国内用户首推 元宝 AI、DeepSeek 的深度思考模式,不推荐豆包 AI;Cursor 等编辑器可在对话 @ 该链接,或加入 User Rules。 若 AI 无法访问外链,可 打开说明文档 复制全文粘贴。文档会随站点更新,复制内容可能过期,建议定期检查。
本仓库包含构建多种程序Docker镜像所需的Dockerfile及其他各类文件,这些程序供StaPH-B(州公共卫生实验室生物信息学)联盟成员使用。本仓库的目的是提供一个集中的Docker镜像位置,方便用户访问,并包含关于容器构建方式和使用方法的清晰文档。
如果您希望贡献Docker镜像或改进现有镜像,请 Fork 本仓库,进行更改/添加,然后提交拉取请求。如果您在使用现有镜像时遇到问题,请提交issue。我们欢迎任何形式的反馈!
https://staph-b.github.io/docker-builds/contribute/
我们还创建了一份用户指南,概述了使用和开发Docker容器的方法和最佳实践。
https://staph-b.github.io/docker-builds/
对于许多人来说,Docker可能不是选项,但Singularity是。大多数Docker容器与Singularity兼容,且可轻松转换为Singularity格式。请参阅上述用户指南,了解如何从Docker Hub下载Docker镜像以及如何使用Singularity运行它们。我们已努力确保我们的容器与Singularity兼容,但如果您发现不兼容的情况,请提交issue告知我们!
, 0.9.8, 1.0.0 | https://github.com/tseemann/abricate |
| https://hub.docker.com/r/staphb/ariba/ | 2.14.4 | https://github.com/sanger-pathogens/ariba |
| https://github.com/nextstrain/augur | 6.3.0 | https://github.com/nextstrain/augur |
| https://github.com/nextstrain/auspice | 2.12.0 | https://github.com/nextstrain/auspice |
| https://hub.docker.com/r/staphb/bbtools/ | 38.76 | [***] |
| https://hub.docker.com/r/staphb/bwa | 0.7.17 | https://github.com/lh3/bwa |
| https://hub.docker.com/r/staphb/canu-racon/ | 2.0(Canu)1.4.3(Racon)2.17(minimap2); 1.9(Canu)1.4.3(Racon)2.17(minimap2); 1.9i(Canu)1.4.3(Racon)2.17(minimap2)(+racon_preprocess.py); 1.7.1(Canu)1.3.1(Racon)2.13(minimap2) | [***] https://github.com/isovic/racon https://lh3.github.io/minimap2/ |
| https://hub.docker.com/r/staphb/centroid/ | 1.0.0 | https://github.com/stjacqrm/centroid |
| https://hub.docker.com/r/staphb/cdc-spn/ | 0.1(无版本) | https://github.com/BenJamesMetcalf/Spn_Scripts_Reference |
| https://hub.docker.com/r/staphb/cfsan-snp-pipeline | 2.0.2 | https://github.com/CFSAN-Biostatistics/snp-pipeline |
| https://hub.docker.com/r/staphb/circlator | 1.5.6 | https://github.com/sanger-pathogens/circlator |
| https://hub.docker.com/r/staphb/clustalo | 1.2.4 | [***] |
| https://hub.docker.com/r/staphb/emm-typing-tool | 0.0.1(无版本) | https://github.com/phe-bioinformatics/emm-typing-tool |
| https://hub.docker.com/r/staphb/fastani | 1.1 | https://github.com/ParBLiSS/FastANI |
| https://hub.docker.com/r/staphb/fasttree | 2.1.11 | [***] |
| https://hub.docker.com/r/staphb/fastqc | 0.11.8 | [***] |
| https://hub.docker.com/r/staphb/filtlong | 0.2.0 | https://github.com/rrwick/filtlong |
| https://hub.docker.com/r/staphb/flye | 2.5, 2.7 | https://github.com/fenderglass/Flye |
| https://hub.docker.com/r/staphb/iqtree/ | 1.6.7 | [***] |
| https://hub.docker.com/r/staphb/ivar/ | 1.1, 1.1(+ SARS-CoV2参考序列), 1.2.1, 1.2.1(+ SARS-CoV2参考序列) | https://github.com/andersen-lab/ivar |
| https://hub.docker.com/r/staphb/kma/ | 1.2.21 | [***] |
| https://hub.docker.com/r/staphb/kraken/ | 1.0, 1.1.1 | https://github.com/DerrickWood/kraken |
| https://hub.docker.com/r/staphb/kraken2/ | 2.0.8-beta | https://github.com/DerrickWood/kraken2 |
| https://hub.docker.com/r/staphb/ksnp3/ | 3.1 | [***] |
| https://hub.docker.com/r/staphb/legsta/ | 0.3.7, 0.5.1 | https://github.com/tseemann/legsta |
| https://hub.docker.com/r/staphb/lyveset/ | 1.1.4f, 2.0.1(lyve-SET) | https://github.com/lskatz/lyve-SET https://github.com/lskatz/CG-Pipeline |
| https://hub.docker.com/r/staphb/mafft/ | 7.450 | [***] |
| https://hub.docker.com/r/staphb/mash/ | 2.1, 2.2 | https://github.com/marbl/Mash |
| https://hub.docker.com/r/staphb/mashtree | 0.52.0, 0.57.0, 1.0.4 | https://github.com/lskatz/mashtree |
| https://hub.docker.com/r/staphb/medaka | 0.8.1, 1.0.1 | https://github.com/nanoporetech/medaka |
| https://hub.docker.com/r/staphb/minimap2 | 2.17 | https://github.com/lh3/minimap2 |
| https://hub.docker.com/r/staphb/mlst | 2.16.2, 2.17.6, 2.19.0 | https://github.com/tseemann/mlst |
| https://hub.docker.com/r/staphb/mugsy | 1r2.3 | [***] |
| https://hub.docker.com/r/staphb/multiqc | 1.7, 1.8 | https://github.com/ewels/MultiQC |
| https://hub.docker.com/r/staphb/nanoplot | 1.27.0, 1.29.0 | https://github.com/wdecoster/NanoPlot |
| https://hub.docker.com/r/staphb/ncbi-amrfinderplus | 3.1.1b, 3.8.4 | https://github.com/ncbi/amr |
| https://hub.docker.com/r/staphb/OrthoFinder | 2.17 | https://github.com/davidemms/OrthoFinder |
| https://hub.docker.com/r/staphb/pilon | 1.23.0 | https://github.com/broadinstitute/pilon |
| https://hub.docker.com/r/staphb/plasmidseeker | 1.0 | https://github.com/bioinfo-ut/PlasmidSeeker |
| https://hub.docker.com/r/staphb/prokka/ | 1.13.4, 1.14.0, 1.14.5 | https://github.com/t |
您可以使用以下命令拉取该镜像。请将 <标签> 替换为具体的标签版本。如需查看所有可用标签版本,请访问 标签列表页面。
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