{"id":66492,"date":"2026-11-14T19:21:22","date_gmt":"2026-11-14T11:21:22","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=66492"},"modified":"2026-11-14T19:21:22","modified_gmt":"2026-11-14T11:21:22","slug":"nf-core-mag-contig-to-bin-guide","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/nf-core-mag-contig-to-bin-guide\/","title":{"rendered":"\u5b8f\u57fa\u56e0\u7ec4\u91cc\u627e\u5230\u4e00\u4e2a\u529f\u80fd\u57fa\u56e0\uff0c\u600e\u4e48\u5224\u65ad\u5b83\u53ef\u80fd\u5c5e\u4e8e\u54ea\u79cd\u83cc\uff1f\u8bfb\u61c2 nf-core\/mag"},"content":{"rendered":"
\n

\u5047\u8bbe\u4f60\u5728\u6cb3\u9053\u6c89\u79ef\u7269\u7684 shotgun \u5b8f\u57fa\u56e0\u7ec4\u6570\u636e\u91cc\u627e\u5230\u4e86\u4e00\u4e2a\u4e0e\u6c2e\u5faa\u73af\u6709\u5173\u7684\u57fa\u56e0\u3002\u63a5\u7740\u770b\u7269\u79cd\u7ec4\u6210\u8868\uff0c\u6837\u672c\u91cc\u53c8\u6709\u597d\u51e0\u7c7b\u7ec6\u83cc\u3002\u80fd\u628a\u8fd9\u4e2a\u57fa\u56e0\u76f4\u63a5\u5f52\u7ed9\u4e30\u5ea6\u6700\u9ad8\u7684\u90a3\u4e00\u79cd\u5417\uff1f\u7269\u79cd\u8868\u548c\u57fa\u56e0\u8868\u5404\u81ea\u63cf\u8ff0\u4e86\u6df7\u5408\u6837\u672c\u7684\u4e00\u4e2a\u4fa7\u9762\uff1b\u8981\u628a\u4e24\u8005\u8fde\u8d77\u6765\uff0c\u9700\u8981\u77e5\u9053\u8fd9\u6bb5\u57fa\u56e0\u548c\u54ea\u4e9b DNA \u7247\u6bb5\u53ef\u80fd\u6765\u81ea\u540c\u4e00\u4e2a\u57fa\u56e0\u7ec4\u3002<\/p>\n

nf-core\/mag \u63d0\u4f9b\u4e86\u4e00\u6761\u8ffd\u67e5\u8def\u5f84\uff1a\u5148\u628a\u77ed\u8bfb\u6bb5\u62fc\u6210\u957f\u7247\u6bb5\uff0c\u518d\u628a\u53ef\u80fd\u6765\u81ea\u540c\u4e00\u57fa\u56e0\u7ec4\u7684\u7247\u6bb5\u5f52\u5230\u4e00\u8d77\u3002<\/strong> \u5f97\u5230\u7684\u5019\u9009\u57fa\u56e0\u7ec4\u53eb MAG\uff0c\u5373\u5b8f\u57fa\u56e0\u7ec4\u7ec4\u88c5\u57fa\u56e0\u7ec4\u3002\u7814\u7a76\u8005\u53ef\u4ee5\u4ece\u67d0\u4e2a\u57fa\u56e0\u6240\u5728\u7684\u7247\u6bb5\u5f80\u56de\u67e5\uff0c\u770b\u5b83\u5f52\u5165\u4e86\u54ea\u4e2a\u5019\u9009\u57fa\u56e0\u7ec4\u3001\u8fd9\u4e2a\u5f52\u5c5e\u6709\u591a\u5c11\u8bc1\u636e\u3002\u4e0b\u6587\u4ee5 5.5.0 \u7248\u3001\u7ec6\u83cc\u548c\u53e4\u83cc\u7684\u53cc\u7aef\u77ed\u8bfb\u6bb5\u6570\u636e\u4e3a\u4f8b\u3002nf-core\/mag \u4ed3\u5e93\u4e0e\u7248\u672c<\/a><\/p>\n

\"\u793a\u610f\u7247\u6bb5\u7532\u548c\u4e59\u5728\u4e0a\u6e38\u8986\u76d6\u9ad8\u3001\u4e0b\u6e38\u8986\u76d6\u4f4e\uff0c\u4e19\u8d8b\u52bf\u76f8\u53cd\uff1b\u5171\u53d8\u4e3a\u5206\u7bb1\u63d0\u4f9b\u7ebf\u7d22\u3002\"<\/p>\n

\u7b2c\u4e00\u6b65\uff0c\u4e3a\u4ec0\u4e48\u8981\u5148\u62fc\u51fa\u66f4\u957f\u7684\u7247\u6bb5\uff1f<\/h2>\n

\u5355\u6761\u77ed\u8bfb\u6bb5\u80fd\u8986\u76d6\u7684\u5e8f\u5217\u6709\u9650\u3002\u7ec4\u88c5\u8f6f\u4ef6\u5229\u7528\u8bfb\u6bb5\u95f4\u5171\u4eab\u7684\u5e8f\u5217\u4fe1\u606f\uff0c\u628a\u80fd\u8854\u63a5\u7684\u90e8\u5206\u62fc\u6210\u8f83\u957f\u7684\u8fde\u7eed\u7247\u6bb5\uff0c\u79f0\u4e3a contig<\/strong>\u3002\u76ee\u6807\u57fa\u56e0\u82e5\u843d\u5728\u4e00\u6761\u8f83\u957f\u7684 contig \u4e0a\uff0c\u540c\u4e00\u7247\u6bb5\u4e0a\u7684\u90bb\u8fd1\u57fa\u56e0\u3001\u5e8f\u5217\u7ec4\u6210\u548c\u8986\u76d6\u60c5\u51b5\u5c31\u80fd\u4e00\u8d77\u68c0\u67e5\u3002nf-core\/mag \u5728\u77ed\u8bfb\u6bb5\u5206\u6790\u4e2d\u63d0\u4f9b MEGAHIT\u3001SPAdes \u7b49\u7ec4\u88c5\u9009\u9879\uff0c\u8d28\u63a7\u4e0e\u5bbf\u4e3b\u53bb\u9664\u5219\u6309\u6570\u636e\u548c\u53c2\u6570\u8bbe\u7f6e\u3002\u5b98\u65b9\u6d41\u7a0b\u4e0e\u7ec4\u88c5\u8f93\u51fa<\/a><\/p>\n

\u4e3a\u4ec0\u4e48\u62fc\u5b8c\u8fd8\u4f1a\u5269\u4e0b\u8bb8\u591a contig\uff1f\u4e24\u79cd\u8fd1\u7f18\u83cc\u53ef\u80fd\u5171\u4eab\u76f8\u540c\u7684\u5e8f\u5217\uff0c\u91cd\u590d\u533a\u57df\u4e5f\u4f1a\u8ba9\u62fc\u63a5\u51fa\u73b0\u591a\u4e2a\u53ef\u80fd\u51fa\u53e3\u3002\u4f4e\u4e30\u5ea6\u5fae\u751f\u7269\u751a\u81f3\u6ca1\u6709\u8db3\u591f\u8bfb\u6bb5\u628a\u76f8\u90bb\u533a\u57df\u63a5\u8d77\u6765\u3002\u5230\u8fd9\u91cc\uff0c\u7814\u7a76\u8005\u62e5\u6709\u7684\u662f\u4e00\u6279\u8f83\u957f\u7247\u6bb5\uff1b\u54ea\u4e2a\u7247\u6bb5\u5c5e\u4e8e\u54ea\u79cd\u5fae\u751f\u7269\uff0c\u4ecd\u7136\u662f\u4e0b\u4e00\u4e2a\u95ee\u9898\u3002<\/p>\n

\u7b2c\u4e8c\u6b65\uff0c\u5206\u7bb1\u51ed\u4ec0\u4e48\u628a\u4e24\u6761 contig \u653e\u5230\u4e00\u8d77\uff1f<\/h2>\n

\u4ee5\u6d41\u7a0b\u652f\u6301\u7684 MetaBAT2 \u4e3a\u4f8b\uff0c\u5b83\u4f1a\u5229\u7528\u5e8f\u5217\u7ec4\u6210<\/strong>\u548c\u8986\u76d6\u6df1\u5ea6<\/strong>\u3002\u6765\u81ea\u540c\u4e00\u57fa\u56e0\u7ec4\u7684\u7247\u6bb5\u5f80\u5f80\u6709\u76f8\u8fd1\u7684\u77ed\u5e8f\u5217\u4f7f\u7528\u7279\u5f81\u3002\u518d\u628a\u591a\u4e2a\u6837\u672c\u7684 reads \u5206\u522b\u6bd4\u5bf9\u56de\u7ec4\u88c5\uff0c\u5982\u679c\u4e24\u4e2a\u7247\u6bb5\u5728\u4e0d\u540c\u6837\u672c\u4e2d\u603b\u662f\u4e00\u8d77\u53d8\u591a\u3001\u4e00\u8d77\u53d8\u5c11\uff0c\u8fd9\u79cd\u8986\u76d6\u6a21\u5f0f\u53c8\u63d0\u4f9b\u4e00\u6761\u7ebf\u7d22\u3002\u5206\u7bb1\u5668\u7ed3\u5408\u8fd9\u4e9b\u4fe1\u606f\uff0c\u628a\u53ef\u80fd\u540c\u6e90\u7684\u7247\u6bb5\u5f52\u5165\u4e00\u4e2a bin<\/strong>\u3002MetaBAT2 \u65b9\u6cd5\u8bba\u6587<\/a><\/p>\n

\u53ef\u4ee5\u7528\u4e00\u4e2a\u5b9a\u6027\u4f8b\u5b50\u7406\u89e3\uff1a\u7247\u6bb5\u7532\u548c\u4e59\u5728\u4e0a\u6e38\u6837\u672c\u91cc\u8986\u76d6\u90fd\u9ad8\uff0c\u5728\u4e0b\u6e38\u90fd\u4f4e\uff1b\u7247\u6bb5\u4e19\u7684\u65b9\u5411\u76f8\u53cd\u3002\u8986\u76d6\u53d8\u5316\u652f\u6301\u4f18\u5148\u8003\u5bdf\u7532\u548c\u4e59\u80fd\u5426\u5f52\u5728\u4e00\u8d77\u3002\u53ef\u5982\u679c\u4e24\u79cd\u5fae\u751f\u7269\u603b\u5728\u540c\u4e00\u73af\u5883\u5171\u540c\u589e\u6b96\uff0c\u5b83\u4eec\u4e5f\u53ef\u80fd\u5448\u76f8\u4f3c\u8d70\u52bf\u3002\u56e0\u6b64\u8fd8\u8981\u770b\u5e8f\u5217\u7ec4\u6210\u3001\u5206\u7bb1\u8d28\u91cf\uff0c\u4ee5\u53ca\u76ee\u6807\u57fa\u56e0\u6240\u5728\u7247\u6bb5\u672c\u8eab\u7684\u8bc1\u636e\u3002\u5141\u8bb8\u67d0\u4e9b\u7247\u6bb5\u6682\u65f6\u6ca1\u6709\u5f52\u5c5e\uff0c\u662f\u4e00\u4e2a\u6709\u7528\u7684\u7ed3\u679c\u3002<\/strong><\/p>\n

\u6837\u672c\u8868\u91cc\u5199\u4e86\u540c\u4e00\u4e2a\u7ec4\uff0c\u5c31\u4f1a\u8054\u5408\u7ec4\u88c5\u5417\uff1f<\/h2>\n

\u4e0b\u9762\u662f\u4e00\u5f20\u793a\u610f\u6837\u672c\u8868\u3002\u4e24\u4e2a\u6587\u4ef6\u5bf9\u6765\u81ea\u540c\u4e00\u7ad9\u70b9\u7684\u4e24\u4e2a\u91c7\u6837\u65f6\u95f4\uff0cgroup<\/code> \u90fd\u5199\u6210 0<\/code>\uff1b\u6b63\u5f0f\u8fd0\u884c\u65f6\u66ff\u6362\u4e3a\u5b9e\u9645\u8def\u5f84\u3002<\/p>\n

sample,group,short_reads_1,short_reads_2,long_reads,short_reads_platform\r\nriver_T1,0,T1_R1.fastq.gz,T1_R2.fastq.gz,,ILLUMINA\r\nriver_T2,0,T2_R1.fastq.gz,T2_R2.fastq.gz,,ILLUMINA\r\n<\/code><\/pre>\n
\u5199\u5165\u540c\u4e00\u4e2a group \u4e0d\u4f1a\u81ea\u52a8\u5f00\u542f\u8054\u5408\u7ec4\u88c5\u3002<\/strong> \u5728\u8fd9\u4e2a\u7248\u672c\u4e2d\uff0c--coassemble_group<\/code> \u63a7\u5236\u662f\u5426\u628a\u540c\u7ec4\u8bfb\u6bb5\u4e00\u8d77\u7ec4\u88c5\uff1b--binning_map_mode<\/code> \u5219\u5173\u7cfb\u5230\u54ea\u4e9b\u6837\u672c\u7684\u8bfb\u6bb5\u4f1a\u88ab\u6bd4\u5bf9\u56de\u7ec4\u88c5\u4ee5\u8ba1\u7b97\u5206\u7bb1\u6240\u7528\u7684\u8986\u76d6\u4fe1\u606f\u3002\u8fd9\u662f\u4e24\u4e2a\u4e0d\u540c\u51b3\u5b9a\uff1a\u53ef\u4ee5\u4fdd\u7559\u9010\u6837\u672c\u7ec4\u88c5\uff0c\u540c\u65f6\u5229\u7528\u7ec4\u5185\u591a\u4e2a\u6837\u672c\u7684\u8986\u76d6\u5dee\u5f02\u8f85\u52a9\u5206\u7bb1\u3002\u5b98\u65b9\u5206\u7ec4\u8bf4\u660e\u4e0e\u8f93\u5165\u793a\u4f8b<\/a> \u00b7 \u4ed3\u5e93\u4e2d\u7684\u8054\u5408\u7ec4\u88c5\u8bf4\u660e<\/a><\/p>\n
\u600e\u4e48\u9009\uff1f\u5982\u679c\u5173\u5fc3\u540c\u4e00\u7ad9\u70b9\u4e0d\u540c\u65f6\u95f4\u7684\u7fa4\u843d\uff0c\u800c\u4e14\u76ee\u6807\u5fae\u751f\u7269\u5728\u5404\u6837\u672c\u8986\u76d6\u90fd\u504f\u4f4e\uff0c\u53ef\u8003\u8651\u5728\u751f\u7269\u5b66\u4e0a\u76f8\u5173\u7684\u6837\u672c\u5185\u6d4b\u8bd5\u8054\u5408\u7ec4\u88c5\u3002\u5982\u679c\u5173\u5fc3\u67d0\u4e2a\u65f6\u95f4\u70b9\u72ec\u6709\u7684\u8fd1\u7f18\u83cc\u682a\uff0c\u9010\u6837\u672c\u7ec4\u88c5\u66f4\u4fbf\u4e8e\u4fdd\u7559\u6837\u672c\u6765\u6e90\uff0c\u4e5f\u80fd\u51cf\u5c11\u4e0d\u540c\u83cc\u682a\u5e8f\u5217\u6df7\u5408\u5e26\u6765\u7684\u89e3\u91ca\u56f0\u96be\u3002\u62ff\u540c\u4e00\u7ec4\u6570\u636e\u6bd4\u8f83\u4e24\u79cd\u65b9\u6848\u65f6\uff0c\u5e94\u770b\u76ee\u6807\u57fa\u56e0\u53ca\u5176\u4e0a\u4e0b\u6e38\u662f\u5426\u66f4\u5b8c\u6574\u3001\u5019\u9009 bin \u7684\u8d28\u91cf\u5982\u4f55<\/strong>\u3002\u4ec5\u51ed\u201c\u54ea\u4e00\u8fb9\u5206\u51fa\u4e86\u66f4\u591a\u4e2a bin\u201d\u5f88\u96be\u51b3\u5b9a\u54ea\u79cd\u65b9\u6848\u9002\u5408\u7814\u7a76\u95ee\u9898\u3002<\/p>\n
\u7b2c\u4e09\u6b65\uff0c\u62ff\u5230 bin \u4ee5\u540e\u600e\u6837\u8ffd\u67e5\u90a3\u4e2a\u529f\u80fd\u57fa\u56e0\uff1f<\/h2>\n
\n\n\n\n\n\n\n\n\n
\u4f60\u60f3\u6838\u5b9e\u4ec0\u4e48<\/th>\n\u53bb\u54ea\u91cc\u627e<\/th>\n\u600e\u6837\u5224\u65ad<\/th>\n<\/tr>\n<\/thead>\n
\u76ee\u6807\u57fa\u56e0\u843d\u5728\u54ea\u6761\u7247\u6bb5\uff1f<\/td>\n\u529f\u80fd\u6ce8\u91ca\u6216\u540c\u6e90\u68c0\u7d22\u7ed3\u679c\u3001\u5bf9\u5e94\u7ec4\u88c5 FASTA<\/td>\n\u7559\u4e0b\u7ec4\u88c5 ID\u3001contig ID\u3001\u57fa\u56e0\u5750\u6807\u548c\u5339\u914d\u4f9d\u636e\u3002\u4e0d\u540c\u7ec4\u88c5\u4e2d\u7684\u540c\u540d contig \u8981\u5206\u5f00\u3002<\/td>\n<\/tr>\n
\u8fd9\u6761\u7247\u6bb5\u88ab\u5206\u7ed9\u4e86\u8c01\uff1f<\/td>\nGenomeBinning\/contig_to_bin\/contig_to_bin_map.tsv<\/code><\/td>\n\u7528\u7ec4\u88c5\u548c contig \u4e00\u8d77\u5b9a\u4f4d\uff0c\u67e5\u770b\u5206\u7bb1\u5668\u3001bin ID\uff1b\u542f\u7528\u7cbe\u70bc\u65f6\uff0c\u786e\u8ba4\u8bfb\u5230\u7684\u662f\u54ea\u4e00\u7248 bin\u3002<\/td>\n<\/tr>\n
\u8fd9\u4e2a\u5019\u9009\u57fa\u56e0\u7ec4\u53ef\u9760\u5417\uff1f<\/td>\nGenomeBinning\/bin_summary.tsv<\/code><\/td>\n\u67e5\u770b\u5df2\u542f\u7528\u6a21\u5757\u7ed9\u51fa\u7684\u5b8c\u6574\u5ea6\u3001\u6c61\u67d3\u5ea6\u4f30\u8ba1\u53ca\u5206\u7c7b\u3002\u6c47\u603b\u8868\u4e2d\u7684\u53ef\u7528\u5217\u53d6\u51b3\u4e8e\u672c\u6b21\u8fd0\u884c\u8bbe\u7f6e\u3002<\/td>\n<\/tr>\n
\u80fd\u628a\u7ed3\u8bba\u5199\u5230\u54ea\u4e00\u6b65\uff1f<\/td>\n\u76ee\u6807\u7247\u6bb5\u7684\u8986\u76d6\u3001\u6ce8\u91ca\u548c bin \u7684\u5206\u7c7b\u4f9d\u636e<\/td>\n\u591a\u6761\u8bc1\u636e\u4e00\u81f4\u65f6\uff0c\u53ef\u5199\u201c\u8be5\u57fa\u56e0\u4f4d\u4e8e\u5f52\u5165\u67d0\u5206\u7c7b\u7fa4\u5019\u9009 MAG \u7684\u7247\u6bb5\u4e0a\u201d\u3002\u82e5\u7247\u6bb5\u672a\u5206\u7bb1\uff0c\u5f53\u524d\u8bc1\u636e\u53ea\u652f\u6301\u5b83\u5b58\u5728\u4e8e\u8fd9\u4e2a\u6837\u672c\u7684\u7ec4\u88c5\u4e2d\u3002<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n
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\u5148\u95ee\u9879\u76ee\u662f\u5426\u771f\u7684\u9700\u8981 MAG\u3002\u5982\u679c\u76ee\u6807\u53ea\u662f\u6bd4\u8f83\u5404\u7ec4\u7269\u79cd\u7ec4\u6210\uff0c\u53ef\u5148\u8d70\u8bfb\u6bb5\u5206\u7c7b\u4e0e\u4e30\u5ea6\u4f30\u8ba1\u8def\u7ebf\uff1b\u5982\u679c\u8981\u628a\u529f\u80fd\u57fa\u56e0\u3001\u90bb\u8fd1\u5e8f\u5217\u548c\u5019\u9009\u5bbf\u4e3b\u8054\u7cfb\u8d77\u6765\uff0c\u7ec4\u88c5\u4e0e\u5206\u7bb1\u7684\u989d\u5916\u8ba1\u7b97\u624d\u6709\u660e\u786e\u6536\u76ca\u3002\u5df2\u5b89\u88c5\u517c\u5bb9\u7684 Nextflow \u548c Docker \u65f6\uff0c\u53ef\u7528 nextflow run nf-core\/mag -r 5.5.0 -profile test,docker --outdir mag_test<\/code> \u68c0\u67e5\u73af\u5883\uff0c\u518d\u9009\u4e00\u7ec4\u6709\u4ee3\u8868\u6027\u7684\u5b8c\u6574\u6587\u5e93\u8bd5\u8dd1\u3002nf-core\/mag \u8fd0\u884c\u8bf4\u660e<\/a><\/p>\n
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