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R., Sandberg, F., Herman, C., Evans, K., Robeson, M. S. II, Bolyen, E., Caporaso, J. G., &amp; Bokulich, N. A. (2026). MOSHPIT: Accessible, reproducible metagenome data science on the QIIME 2 framework. 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76.2745098039%);}#mermaid-svg-fJZHFZY5X9mohVNu .edge-depth-10{stroke-width:-16;}#mermaid-svg-fJZHFZY5X9mohVNu .section-10 line{stroke:hsl(30, 100%, 86.2745098039%);stroke-width:3;}#mermaid-svg-fJZHFZY5X9mohVNu .disabled,#mermaid-svg-fJZHFZY5X9mohVNu .disabled circle,#mermaid-svg-fJZHFZY5X9mohVNu .disabled text{fill:lightgray;}#mermaid-svg-fJZHFZY5X9mohVNu .disabled text{fill:#efefef;}#mermaid-svg-fJZHFZY5X9mohVNu .section-root rect,#mermaid-svg-fJZHFZY5X9mohVNu .section-root path,#mermaid-svg-fJZHFZY5X9mohVNu .section-root circle,#mermaid-svg-fJZHFZY5X9mohVNu .section-root polygon{fill:hsl(240, 100%, 46.2745098039%);}#mermaid-svg-fJZHFZY5X9mohVNu .section-root text{fill:#ffffff;}#mermaid-svg-fJZHFZY5X9mohVNu .section-root span{color:#ffffff;}#mermaid-svg-fJZHFZY5X9mohVNu .section-2 span{color:#ffffff;}#mermaid-svg-fJZHFZY5X9mohVNu .icon-container{height:100%;display:flex;justify-content:center;align-items:center;}#mermaid-svg-fJZHFZY5X9mohVNu .edge{fill:none;}#mermaid-svg-fJZHFZY5X9mohVNu .mindmap-node-label{dy:1em;alignment-baseline:middle;text-anchor:middle;dominant-baseline:middle;text-align:center;}#mermaid-svg-fJZHFZY5X9mohVNu :root{&#8211;mermaid-font-family:\\&#8221;trebuchet ms\\&#8221;,verdana,arial,sans-serif;}<span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"edgeLabel\"><\/span><span class=\"nodeLabel\"><\/p>\n<p>MOSHPIT<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u80cc\u666f<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>16S\u53ea\u770b\u6f5c\u80fd<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>WMS\u529f\u80fd\u66f4\u5f3a\u4f46\u6d41\u7a0b\u788e<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>QIIME2\u7f3aWMS\u539f\u751f\u652f\u6301<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u8bbe\u8ba1<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>Q2F\u63d2\u4ef6\u4f53\u7cfb<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u7ec4\u88c5\u5206\u7bb1\u6ce8\u91ca\u4e00\u4f53\u5316<\/p>\n<p><\/span><span 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class=\"nodeLabel\"><\/p>\n<p>TARA\u6d77\u6d0b<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u591a\u7814\u7a76\u4eba\u80a0<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u53ef\u53ef\u53d1\u9175<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u610f\u4e49<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u964d\u4f4eWMS\u95e8\u69db<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u7aef\u5230\u7aef\u53ef\u91cd\u590d<\/p>\n<p><\/span><span class=\"nodeLabel\"><\/p>\n<p>\u8bfb\u91cd\u53e0\u7fa4MAG\u4e09\u5c3a\u5ea6<\/p>\n<p><\/span><\/p>\n<h3>\u80cc\u666f\u4ecb\u7ecd<\/h3>\n<p>\u6807\u8bb0\u57fa\u56e0\u6269\u589e\u5b50\u6d4b\u5e8f&#xff08;\u5982 16S rRNA&#xff09;\u56e0\u53ef\u6269\u5c55\u6027\u5f3a\u800c\u88ab\u5e7f\u6cdb\u4f7f\u7528&#xff0c;\u4f46\u53d7\u5f15\u7269\u9009\u62e9\u5f71\u54cd&#xff0c;\u4e14\u4ec5\u80fd\u95f4\u63a5\u63a8\u65ad\u529f\u80fd\u6f5c\u529b\u3002\u76f8\u6bd4\u4e4b\u4e0b&#xff0c;WMS 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src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2026\/10\/20261008102459-6ac76f7b5c161.png\" alt=\"\" \/><\/p>\n<p>\u56fe 1. MOSHPIT \u4e3b\u8981\u8f93\u5165\u8f93\u51fa\u7c7b\u578b\u4e0e\u63d2\u4ef6\u67b6\u6784\u3002A \u9762\u677f\u5c55\u793a\u539f\u59cb\u8bfb\u53ef\u7531 Kaiju \u505a\u5206\u7c7b\u6ce8\u91ca&#xff0c;Kraken 2 \u53ef\u4f5c\u7528\u4e8e\u539f\u59cb\u8bfb\u3001\u91cd\u53e0\u7fa4\u6216\u53bb\u5197\u4f59 MAG&#xff1b;eggNOG-mapper \u53ef\u7528\u4e8e\u91cd\u53e0\u7fa4\u6216\u53bb\u5197\u4f59 MAG \u7684\u529f\u80fd\u6ce8\u91ca&#xff0c;HUMANN \u7528\u4e8e\u8bfb\u7ea7\u529f\u80fd\u8c31\u3002B \u9762\u677f\u5217\u51fa\u4e0e MOSHPIT \u5de5\u4f5c\u6d41\u517c\u5bb9\u7684\u63d2\u4ef6&#xff0c;\u661f\u53f7\u8868\u793a\u793e\u533a\u63d2\u4ef6\u3002<\/p>\n<h4>\u57fa\u4e8e CAMI II \u7684\u7ec4\u88c5\u4e0e MAG \u6062\u590d\u57fa\u51c6<\/h4>\n<p>\u4f5c\u8005\u7528 CAMI II \u4eba\u4f53\u5fae\u751f\u6001\u73a9\u5177\u6570\u636e\u96c6&#xff08;49 \u4e2a\u6837\u672c&#xff0c;\u6bcf\u6837\u672c 16.6M \u8bfb&#xff09;\u8bc4\u4f30\u6807\u51c6 MOSHPIT \u6d41\u7a0b\u3002\u7ec4\u88c5\u8fde\u7eed\u6027\u56e0\u8eab\u4f53\u90e8\u4f4d\u800c\u5f02&#xff1a;\u6c14\u9053&#xff08;airways&#xff09;\u4e2d\u4f4d\u6700\u957f\u91cd\u53e0\u7fa4\u7ea6 0.45 Mbp&#xff0c;\u80c3\u80a0\u9053&#xff08;gastrointestinal tract&#xff09;\u7ea6 0.9 Mbp&#xff1b;\u4f46\u6240\u6709\u90e8\u4f4d\u7684\u7ec4\u88c5\u51c6\u786e\u5ea6\u90fd\u5f88\u9ad8&#xff0c;\u4e2d\u4f4d\u91cd\u53e0\u7fa4 ANI \u8d85\u8fc7 95%&#xff0c;\u80c3\u80a0\u6837\u672c\u63a5\u8fd1 99%\u3002\u53bb\u5197\u4f59 MAG \u4e0e\u91d1\u6807\u51c6\u6bd4\u5bf9\u663e\u793a&#xff0c;\u5206\u7c7b\u5b66\u6062\u590d\u529b\u5f3a&#xff1a;\u5c5e\u7ea7&#xff08;level 7&#xff09;R\u00b2 \u8d85\u8fc7 0.85&#xff0c;\u79d1\u7ea7\u4ee5\u4e0a R\u00b2 \u9ad8\u4e8e 0.9&#xff1b;\u5206\u7c7b\u5b66\u51c6\u786e\u7387&#xff08;taxon accuracy rate&#xff0c;TAR&#xff09;\u4e0e\u68c0\u51fa\u7387&#xff08;taxon detection rate&#xff0c;TDR&#xff09;\u5728\u66f4\u7ec6\u5206\u8fa8\u7387\u4e0b\u81ea\u7136\u4e0b\u964d&#xff0c;\u4f46\u6574\u4f53\u7fa4\u843d\u91cd\u6784\u4fdd\u6301\u9ad8\u7cbe\u5ea6\u3002<\/p>\n<p><img decoding=\"async\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2026\/10\/20261008102500-6ac76f7c51e97.png\" alt=\"\" \/><\/p>\n<p>\u56fe 2. CAMI II \u57fa\u51c6\u7ed3\u679c\u3002A \u9762\u677f\u4e3a\u5404\u8eab\u4f53\u90e8\u4f4d&#xff08;A \u6c14\u9053\u3001G \u80c3\u80a0\u3001O \u53e3\u8154\u3001S \u76ae\u80a4\u3001U \u6ccc\u5c3f\u751f\u6b96&#xff09;\u7684\u7ec4\u88c5\u8d28\u91cf\u6307\u6807\u3002B \u9762\u677f\u4e3a\u53bb\u5197\u4f59 MAG \u4e0e\u91d1\u6807\u51c6\u6570\u636e\u96c6\u7684\u7fa4\u843d\u6062\u590d\u8bc4\u4f30&#xff0c;\u8bef\u5dee\u68d2\u8868\u793a\u5747\u503c\u6807\u51c6\u8bef\u3002<\/p>\n<h4>TARA Oceans \u6d77\u6d0b\u539f\u6838\u5fae\u751f\u7269\u5206\u6790<\/h4>\n<p>\u4e3a\u5c55\u793a\u5927\u89c4\u6a21 WMS \u5904\u7406\u80fd\u529b&#xff0c;\u4f5c\u8005\u7528 q2-fondue \u4ece NCBI SRA \u62c9\u53d6 TARA Oceans \u539f\u6838\u7ec4\u5206\u6570\u636e&#xff0c;\u518d\u7528 q2-annotate \u4e2d Kraken 2 \u505a\u8bfb\u7ea7\u5206\u7c7b&#xff0c;\u5e76\u63a5\u5165 Q2F \u7684\u591a\u6837\u6027\u5206\u6790\u3002\u5730\u56fe\u9762\u677f\u5c55\u793a\u5168\u7403\u6837\u54c1\u7684\u9999\u519c\u591a\u6837\u6027&#xff0c;\u56db\u4e2a\u653e\u5927\u533a\u663e\u793a\u4e0d\u540c\u6df1\u5ea6\u6837\u54c1\u7684\u5206\u7c7b\u6307\u6d3e&#xff1b;Bray-Curtis \u4e3b\u5750\u6807\u6563\u70b9\u56fe\u7a81\u51fa\u6df1\u6d77\u6837\u54c1\u5728\u7ec4\u6210\u4e0a\u7684\u76f8\u4f3c\u6027\u3002\u8be5\u6848\u4f8b\u8bc1\u660e MOSHPIT \u53ef\u4e0e\u65e2\u6709 QIIME 2 \u63d2\u4ef6\u4e92\u64cd\u4f5c&#xff0c;\u4ece\u6570\u636e\u83b7\u53d6\u5230\u591a\u6837\u6027\u5206\u6790\u90fd\u5728\u540c\u4e00\u6846\u67b6\u5185\u5b8c\u6210\u3002<\/p>\n<p><img decoding=\"async\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2026\/10\/20261008102500-6ac76f7ca4687.png\" alt=\"\" \/><\/p>\n<p>\u56fe 3. TARA Oceans \u5206\u6790\u6982\u89c8\u3002\u5730\u56fe\u63cf\u7ed8\u5168\u7403\u91c7\u96c6\u6837\u54c1\u7684\u9999\u519c\u591a\u6837\u6027&#xff0c;\u5e76\u653e\u5927\u56db\u4e2a\u4f4d\u70b9\u5c55\u793a\u5206\u7c7b\u6307\u6d3e&#xff1b;Bray-Curtis \u4e3b\u5750\u6807\u6563\u70b9\u56fe\u663e\u793a\u6df1\u6d77\u6837\u54c1\u95f4\u7684\u7ec4\u6210\u76f8\u4f3c\u6027\u3002<\/p>\n<h4>\u591a\u7814\u7a76\u4eba\u80a0\u5b8f\u57fa\u56e0\u7ec4\u4e2d\u7684\u5de5\u4e1a\u5316\u68af\u5ea6\u4e0e\u8010\u836f\u7ec4<\/h4>\n<p>\u4f5c\u8005\u6574\u5408 1,578 \u4e2a\u4eba\u80a0\u6837\u672c\u3001\u8986\u76d6\u91c7\u730e\u3001\u6e14\u730e\u3001\u519c\u8015\u4e0e\u4e0d\u540c\u5de5\u4e1a\u5316\u7a0b\u5ea6\u4eba\u7fa4\u3002\u91cd\u53e0\u7fa4\u7528 MEGAHIT \u7ec4\u88c5&#xff0c;eggNOG-mapper \u6ce8\u91ca KEGG KO \u672f\u8bed&#xff0c;\u8bfb\u56de\u8d34\u540e\u7b97\u6bcf\u6837\u672c KO \u4e30\u5ea6\u3002PERMANOVA&#xff08;adonis2&#xff09;\u663e\u793a\u4eba\u7fa4\u7c7b\u578b\u663e\u8457\u89e3\u91ca\u6837\u672c\u95f4\u65b9\u5dee&#xff08;R\u00b2&#061;0.15&#xff0c;p&#061;0.001&#xff09;\u3002ANCOM-BC2 \u53d1\u73b0\u5de5\u4e1a\u5316\u5927\u57ce\u5e02\u4e0e\u91c7\u730e\u4eba\u7fa4\u95f4\u5dee\u5f02\u6700\u663e\u8457\u7684 KO \u4e4b\u4e00\u4e3a K08169&#xff08;log-fold change&#061;3.57&#xff0c;p&lt;0.001&#xff09;&#xff0c;\u8be5\u57fa\u56e0\u7f16\u7801\u4e3b\u8981\u6613\u5316\u8d85\u5bb6\u65cf&#xff08;major facilitator superfamily&#xff09;\u5916\u6392\u8f6c\u8fd0\u86cb\u767d&#xff0c;\u8d4b\u4e88\u591a\u91cd\u8010\u836f\u8868\u578b\u3002\u7ed3\u679c\u4e0e\u201c\u5de5\u4e1a\u5316\u4eba\u7fa4\u80a0\u9053\u8010\u836f\u7ec4\u66f4\u5bcc\u96c6\u201d\u7684\u65e2\u5f80\u7ed3\u8bba\u4e00\u81f4\u3002<\/p>\n<p><img decoding=\"async\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2026\/10\/20261008102501-6ac76f7d022ce.png\" alt=\"\" \/><\/p>\n<p>\u56fe 4. \u4eba\u80a0\u5de5\u4e1a\u5316\u68af\u5ea6\u529f\u80fd\u5206\u6790\u3002\u4e3b\u5750\u6807\u6563\u70b9\u56fe\u6309\u57ce\u5e02\u5316\u6c34\u5e73\u4eba\u7fa4\u7684\u529f\u80fd\u8c31\u805a\u7c7b&#xff1b;\u7bb1\u7ebf\u56fe\u663e\u793a\u591a\u91cd\u8010\u836f\u8f6c\u8fd0\u86cb\u767d K08169 \u4e30\u5ea6\u968f\u57ce\u5e02\u5316\u6c34\u5e73\u4e0a\u5347\u800c\u589e\u52a0\u3002<\/p>\n<h4>\u53ef\u53ef\u53d1\u9175\u4e2d\u7684\u8bfb\u7ea7\u4e0e MAG \u7ea7\u4e00\u81f4\u6027\u5206\u6790<\/h4>\n<p>\u5bf9 14 \u4e2a\u53ef\u53ef\u53d1\u9175\u65f6\u95f4\u5e8f\u5217\u6837\u672c&#xff08;\u4e24\u4e2a\u54c1\u79cd\u5404 7 \u4e2a&#xff09;&#xff0c;MOSHPIT \u540c\u65f6\u8dd1\u8bfb\u7ea7&#xff08;Kraken 2\u3001Kaiju\u3001mOTUs 3&#xff09;\u4e0e MAG \u7ea7\u6d41\u7a0b\u3002\u6240\u6709\u5206\u7c7b\u5668\u90fd\u518d\u73b0\u4e86\u53d1\u9175\u8fc7\u7a0b\u4e2d\u5206\u7c7b\u591a\u6837\u6027\u7684\u4e0b\u964d&#xff0c;\u5e76\u68c0\u51fa Acetobacter \u4e0e Pantoea \u4e30\u5ea6\u964d\u4f4e\u3002MAG \u529f\u80fd\u6ce8\u91ca\u7ed9\u51fa\u6bcf\u6837\u672c CAZyme&#xff08;\u78b3\u6c34\u5316\u5408\u7269\u6d3b\u6027\u9176&#xff09;\u8ba1\u6570&#xff1a;\u53d1\u9175\u8fdb\u7a0b\u4e2d\u7cd6\u57fa\u8f6c\u79fb\u9176&#xff08;glycosyltransferase&#xff0c;GT&#xff09;\u7c7b\u4e0a\u5347&#xff0c;\u7cd6\u82f7\u6c34\u89e3\u9176&#xff08;glycoside hydrolase&#xff0c;GH&#xff09;\u7c7b\u4e0b\u964d&#xff0c;\u8868\u660e\u53d1\u9175\u540e\u671f\u5fae\u751f\u7269\u7fa4\u843d\u5728\u78b3\u6c34\u5316\u5408\u7269\u4ee3\u8c22\u4e0a\u53d1\u751f\u529f\u80fd\u503e\u659c\u3002\u8be5\u6848\u4f8b\u9a8c\u8bc1\u4e86 MOSHPIT \u5728\u98df\u54c1\u53d1\u9175\u751f\u5883\u4e2d\u7684\u7aef\u5230\u7aef\u53ef\u7528\u6027\u3002<\/p>\n<p><img decoding=\"async\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2026\/10\/20261008102501-6ac76f7d32382.png\" alt=\"\" \/><\/p>\n<p>\u56fe 5. \u53ef\u53ef\u53d1\u9175\u8bfb\u7ea7\u4e0e MAG \u7ea7\u7ed3\u679c\u3002A \u4e0e B \u9762\u677f\u663e\u793a&#xff1a;\u8bfb\u7ea7&#xff08;A&#xff09;\u4e0e 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R., Sandberg, F., Herman, C., Evans, K., Robeson, M. S. II, Bolyen, E., Caporaso, J. G., &amp; Bokulich, N. A. (2026). MOSHPIT: Accessible, reproducible metagenome data science on the QIIME 2 framework. Cell Genomics, 6, 101366. https:\/\/doi.org\/10.1016\/j.xgen.2026.101366<\/li>\n<li>Bolyen, E. et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat. Biotechnol. 37, 852\u2013857 (2019).<\/li>\n<li>Meyer, F. et al. Critical Assessment of Metagenome Interpretation: the second round of challenges. Nat. Methods 19, 429\u2013440 (2022).<\/li>\n<li>Seppey, M. et al. LEMMI: A continuous benchmarking platform for metagenomics classifiers. Genome Res. 30, 1208\u20131216 (2020).<\/li>\n<li>MOSHPIT \u6587\u6863&#xff1a;https:\/\/moshpit.qiime2.org<\/li>\n<li>q2-assembly&#xff1a;https:\/\/github.com\/bokulich-lab\/q2-assembly<\/li>\n<li>q2-mag&#xff1a;https:\/\/github.com\/bokulich-lab\/q2-mag<\/li>\n<li>q2-annotate&#xff1a;https:\/\/github.com\/bokulich-lab\/q2-annotate<\/li>\n<li>nf-moshpit&#xff1a;https:\/\/github.com\/bokulich-lab\/nf-moshpit<\/li>\n<li>Cell Genomics \u671f\u520a\u4e3b\u9875&#xff1a;https:\/\/www.cell.com\/cell-genomics\/home<\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>\u6458\u8981<br \/>\n\u975e\u9776\u5411\u5b8f\u57fa\u56e0\u7ec4&#xff08;\u53c8\u79f0\u9e1f\u67aa\u5b8f\u57fa\u56e0\u7ec4&#xff0c;whole-metagenome sequencing&#xff0c;WMS&#xff09;\u6d4b\u5e8f\u53ef\u5168\u9762\u89e3\u6790\u5fae\u751f\u7269\u7fa4\u843d\u7684\u5206\u7c7b\u4e0e\u529f\u80fd\u7ec4\u6210&#xff0c;\u5e76\u652f\u6301\u4e0d\u4f9d\u8d56\u57f9\u517b\u5730\u91cd\u6784\u5b8f\u57fa\u56e0\u7ec4\u7ec4\u88c5\u57fa\u56e0\u7ec4&#xff08;metagenome-assembled genomes&#xff0c;MAGs&#xff09;\u3002\u7136\u800c&#xff0c;WMS \u5206\u6790\u6d41\u7a0b\u590d\u6742\u3001\u5de5\u5177\u5272\u88c2\u3001\u7f3a\u4e4f\u6807\u51c6\u5316&#xff0c;\u4e25\u91cd\u5236\u7ea6\u7ed3\u679c\u7684\u53ef\u91cd\u590d\u6027\u3002\u4f5c\u8005\u4ecb\u7ecd<\/p>\n","protected":false},"author":2,"featured_media":114266,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[801],"topic":[],"class_list":["post-114272","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-server","tag-801"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v20.3 - 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