{"id":71494,"date":"2026-11-15T01:08:38","date_gmt":"2026-11-14T17:08:38","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=71494"},"modified":"2026-11-15T01:15:05","modified_gmt":"2026-11-14T17:15:05","slug":"minigraph-alternate-backbones-insertion-bubble-and-no-call","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/minigraph-alternate-backbones-insertion-bubble-and-no-call\/","title":{"rendered":"minigraph \u5b9e\u8dd1\uff5c\u540c\u4e00\u6bb5 1400 bp\uff0c\u6362\u4e00\u4e2a\u9aa8\u67b6\u540e\uff0c\u4e3a\u4ec0\u4e48\u8fde\u53d8\u5f02\u5750\u6807\u7684\u957f\u5ea6\u4e5f\u53d8\u4e86\uff1f"},"content":{"rendered":"
\n

\u628a\u957f\u77ed\u76f8\u5dee\u4e00\u5343\u56db\u767e\u78b1\u57fa\u7684\u4e24\u4e2a\u5355\u500d\u578b\u653e\u8fdb\u6cdb\u57fa\u56e0\u7ec4\u56fe\uff0c\u5dee\u5f02\u770b\u8d77\u6765\u5f88\u7b80\u5355\u3002\u5f53\u77ed\u5e8f\u5217\u4f5c\u4e3a\u53c2\u8003\uff0c\u989d\u5916\u5e8f\u5217\u662f\u67d0\u4e2a\u4f4d\u7f6e\u4e0a\u7684\u63d2\u5165\u3002\u6362\u6210\u957f\u5e8f\u5217\u4f5c\u4e3a\u53c2\u8003\uff0c\u6ca1\u6709\u8fd9\u6bb5\u5e8f\u5217\u7684\u6837\u672c\u4fbf\u8de8\u8fc7\u4e00\u6bb5\u53c2\u8003\u533a\u95f4\u3002\u7528\u540c\u4e00\u5bf9\u8f93\u5165\u5b9e\u9645\u5efa\u4e24\u6b21\u56fe\uff0c\u53ef\u4ee5\u770b\u5230\u5750\u6807\u3001\u8282\u70b9\u6765\u6e90\u548c\u6837\u672c\u8def\u5f84\u5982\u4f55\u4e00\u8d77\u53d8\u5316\u3002\u8fd8\u6709\u4e00\u4e2a\u503c\u5f97\u4fdd\u7559\u7684\u7ed3\u679c\uff0c\u7b2c\u4e8c\u5f20\u56fe\u6b63\u786e\u5bb9\u7eb3\u4e86\u4e24\u79cd\u7ed3\u6784\uff0c\u4f46\u8fd9\u6b21\u9010\u6837\u672c\u56de\u67e5\u6ca1\u6709\u7ed9\u51fa\u7a7f\u8fc7\u6c14\u6ce1\u7684\u786e\u5b9a\u8def\u5f84\u3002minigraph \u4f5c\u8005\u7684\u6784\u56fe\u4e0e\u8c03\u7528\u8bf4\u660e<\/a><\/p>\n

\u5148\u5206\u6e05\u4e09\u4e2a\u4e0d\u540c\u7684\u5750\u6807<\/h2>\n

\u4e00\u4e2a\u56fe\u8282\u70b9\u6709\u81ea\u5df1\u7684\u7f16\u53f7\u3001\u5185\u90e8\u5e8f\u5217\u548c\u957f\u5ea6\u3002rGFA \u8fd8\u4e3a\u8be5\u8282\u70b9\u4fdd\u7559\u4e00\u5957\u7a33\u5b9a\u5750\u6807\uff0c\u5305\u62ec\u5b83\u6765\u6e90\u4e8e\u54ea\u6761\u5e8f\u5217\u3001\u5728\u8fd9\u6761\u5e8f\u5217\u4e2d\u7684\u8d77\u59cb\u504f\u79fb\uff0c\u4ee5\u53ca\u5728\u6784\u56fe\u4e2d\u6240\u5728\u7684\u5c42\u7ea7\u3002\u7b2c\u4e00\u4efd\u4f5c\u4e3a\u9aa8\u67b6\u7684\u53c2\u8003\u5bf9\u5e94\u96f6\u5c42\uff0c\u540e\u9762\u52a0\u5165\u7684\u5e8f\u5217\u53ef\u4ee5\u4e3a\u56fe\u8d21\u732e\u65b0\u7684\u7247\u6bb5\u3002\u6837\u672c\u7ec4\u88c5\u4e0e\u56fe\u91cd\u65b0\u505a\u6bd4\u5bf9\u65f6\uff0c\u8fd8\u4f1a\u51fa\u73b0\u7b2c\u4e09\u5957\u4f4d\u7f6e\uff0c\u5373\u6837\u672c\u81ea\u8eab\u7684\u5750\u6807\u3002\u540c\u4e00\u4e2a\u6570\u5b57\u53ef\u80fd\u5206\u522b\u662f\u9aa8\u67b6\u65ad\u70b9\u3001\u539f\u59cb\u5e8f\u5217\u4e0a\u7684\u504f\u79fb\u6216\u67e5\u8be2\u6837\u672c\u7684\u5bf9\u9f50\u8fb9\u754c\uff0c\u6284\u5199\u5230\u7ed3\u679c\u8868\u524d\u5e94\u52a0\u4e0a\u5bf9\u5e94\u5e8f\u5217\u540d\u3002rGFA \u683c\u5f0f\u53ca\u7a33\u5b9a\u5750\u6807\u5b9a\u4e49<\/a><\/p>\n

\u6784\u56fe\u8f93\u5165\u4e5f\u6709\u8bb2\u7a76\u3002\u4f5c\u8005\u7684\u589e\u91cf\u5efa\u56fe\u6d41\u7a0b\u628a\u6bcf\u4e00\u4efd\u540e\u7eed\u6587\u4ef6\u770b\u4f5c\u4e00\u4e2a\u4e2a\u4f53\u7684\u7ec4\u88c5\uff0c\u8bd5\u56fe\u627e\u51fa\u9002\u5408\u52a0\u5165\u56fe\u7684\u5bf9\u5e94\u533a\u57df\u3002\u628a\u5f88\u591a\u4e2a\u4f53\u7684\u7ec4\u88c5\u968f\u610f\u62fc\u5728\u540c\u4e00\u4e2a\u6587\u4ef6\u91cc\uff0c\u4f1a\u6539\u53d8\u540c\u4e00\u533a\u57df\u51fa\u73b0\u591a\u5c11\u6b21\uff0c\u8fdb\u800c\u5f71\u54cd\u5bf9\u5e94\u5224\u65ad\u3002\u505a\u5de5\u5177\u8bd5\u9a8c\u65f6\u6700\u597d\u7528\u72ec\u7acb\u6587\u4ef6\u4fdd\u7559\u6bcf\u4efd\u6837\u672c\u7684\u8eab\u4efd\uff0c\u8bb0\u5f55\u8f93\u5165\u987a\u5e8f\u548c\u521d\u59cb\u9aa8\u67b6\u3002\u4ece\u56fe\u4e2d\u770b\u5230\u7b2c\u4e00\u4efd\u4ee5\u5916\u7684\u6837\u672c\u540d\uff0c\u4e0d\u4ee3\u8868\u8be5\u6837\u672c\u7684\u6bcf\u4e2a\u78b1\u57fa\u90fd\u65b0\u5efa\u4e86\u4e00\u4e2a\u8282\u70b9\uff0c\u5171\u4eab\u90e8\u5206\u901a\u5e38\u53ef\u4ee5\u6cbf\u5df2\u6709\u8282\u70b9\u884c\u8d70\u3002<\/p>\n

\u5b9e\u8dd1\u7ecf\u9a8c\uff5c\u5148\u7528\u77ed\u9aa8\u67b6\uff0c\u518d\u628a\u4e24\u4efd\u8f93\u5165\u5bf9\u8c03<\/h2>\n

\u4e24\u6761\u4eba\u5de5\u5e8f\u5217\u5171\u4eab\u56db\u4e07\u4e94\u5343\u78b1\u57fa\u7684\u5de6\u7ffc\u548c\u56db\u4e07\u4e03\u5343\u78b1\u57fa\u7684\u53f3\u7ffc\u3002\u77ed\u5e8f\u5217\u957f\u4e5d\u4e07\u4e8c\u5343\u78b1\u57fa\uff0c\u957f\u5e8f\u5217\u5728\u5de6\u53f3\u7ffc\u4e4b\u95f4\u591a\u51fa\u4e00\u6bb5\u56fa\u5b9a\u968f\u673a\u79cd\u5b50\u751f\u6210\u7684\u4e00\u5343\u56db\u767e\u78b1\u57fa\u3002\u6211\u4eec\u4ece\u6e90\u7801\u7f16\u8bd1 minigraph 0.21\u3002\u7b2c\u4e00\u6b21\u76f4\u63a5\u7528\u6784\u56fe\u9884\u8bbe\uff0c\u77ed\u9aa8\u67b6\u8f93\u51fa\u53ea\u6709\u4e00\u4e2a\u4e5d\u4e07\u4e8c\u5343\u78b1\u57fa\u7684\u8282\u70b9\uff0c\u6ca1\u6709\u5f97\u5230\u9884\u8bbe\u5dee\u5f02\u3002\u67e5\u770b\u8fd9\u4e2a\u7248\u672c\u7684\u5e2e\u52a9\uff0c\u9ed8\u8ba4\u6700\u5c0f\u6bd4\u5bf9\u957f\u5ea6\u662f\u5341\u4e07\uff0c\u5df2\u7ecf\u8d85\u8fc7\u8fd9\u6761\u8bd5\u9a8c\u5e8f\u5217\u3002\u6309\u4f5c\u8005\u5c0f\u6570\u636e\u793a\u4f8b\u628a\u8fd9\u4e2a\u503c\u964d\u4e3a\u4e00\u4e07\u540e\uff0c\u4e24\u79cd\u8f93\u5165\u987a\u5e8f\u90fd\u6784\u51fa\u4e86\u5e26\u5206\u652f\u7684\u56fe\u3002\u8fd9\u4e2a\u4fee\u6b63\u662f\u4e3a\u4e86\u8ba9\u5c0f\u5bf9\u7167\u8fd0\u884c\uff0c\u771f\u5b9e\u7ec4\u88c5\u5e94\u5355\u72ec\u8bc4\u4f30\u653e\u5bbd\u9608\u503c\u4f1a\u5e26\u5165\u54ea\u4e9b\u91cd\u590d\u5339\u914d\u3002minigraph \u53c2\u6570\u624b\u518c<\/a><\/p>\n

\n\n\n\n\n\n\n\n
\u68c0\u67e5\u9879<\/th>\n\u77ed\u5e8f\u5217\u4f5c\u4e3a\u9aa8\u67b6<\/th>\n\u957f\u5e8f\u5217\u4f5c\u4e3a\u9aa8\u67b6<\/th>\n<\/tr>\n<\/thead>\n
\u989d\u5916 1400 bp \u7684\u8282\u70b9\u6765\u6e90<\/td>\nlong\uff0c\u8d77\u70b9 45000\uff0c\u5c42\u7ea7 1<\/td>\nlong\uff0c\u8d77\u70b9 45000\uff0c\u5c42\u7ea7 0<\/td>\n<\/tr>\n
\u6c14\u6ce1\u5728\u9aa8\u67b6\u4e0a\u7684\u533a\u95f4<\/td>\nshort \u7684 [45000,45000)<\/td>\nlong \u7684 [45000,46400)<\/td>\n<\/tr>\n
\u5bf9\u4e24\u4efd\u6837\u672c\u5206\u522b\u8fd0\u884c\u8c03\u7528<\/td>\n\u77ed\u6837\u672c\u8d70\u957f\u5ea6\u4e3a 0 \u7684\u652f\u8def\uff0c\u957f\u6837\u672c\u7ecf\u8fc7 1400 bp \u8282\u70b9<\/td>\n\u4e24\u4efd\u6837\u672c\u7684\u8def\u5f84\u680f\u5747\u4e3a\u4e00\u4e2a\u70b9<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n

\u77ed\u9aa8\u67b6\u4e0a\u7684\u533a\u95f4\u8d77\u6b62\u76f8\u540c\uff0c\u56e0\u4e3a\u66ff\u4ee3\u8def\u5f84\u5728\u4e24\u4e2a\u76f8\u90bb\u9aa8\u67b6\u7247\u6bb5\u4e4b\u95f4\u591a\u8d70\u4e00\u6bb5\uff0c\u63d2\u5165\u672c\u8eab\u4e0d\u6d88\u8017\u77ed\u9aa8\u67b6\u78b1\u57fa\u3002\u628a\u4e24\u4efd\u8f93\u5165\u5bf9\u8c03\uff0c\u539f\u6765\u7684\u989d\u5916\u7247\u6bb5\u6210\u4e86\u9aa8\u67b6\u7684\u4e00\u90e8\u5206\u3002\u73b0\u5728\u77ed\u6837\u672c\u53ef\u4ee5\u901a\u8fc7\u56fe\u4e2d\u7684\u76f4\u8fde\u8fb9\u8df3\u8fc7\u5b83\uff0c\u957f\u9aa8\u67b6\u4e0a\u88ab\u8de8\u8fc7\u53bb\u7684\u533a\u95f4\u957f\u4e00\u5343\u56db\u767e\u3002\u4e24\u5f20\u56fe\u91cc\u7684\u90a3\u6bb5\u5e8f\u5217\u5747\u9010\u5b57\u7b49\u4e8e\u6211\u4eec\u9884\u5148\u52a0\u8fdb\u53bb\u7684\u78b1\u57fa\uff0c\u6765\u6e90\u540d\u90fd\u662f\u957f\u6837\u672c\uff0c\u4f46\u5c42\u7ea7\u4e00\u4e2a\u4e3a\u4e00\uff0c\u4e00\u4e2a\u4e3a\u96f6\u3002\u4ea4\u6362\u53c2\u8003\u540e\uff0c\u5982\u679c\u8fd8\u7528\u65e7\u6587\u4ef6\u4e2d\u4e00\u6bb5\u533a\u95f4\u7684\u957f\u5ea6\u53bb\u7b5b\u65b0\u8868\uff0c\u5c31\u4f1a\u628a\u540c\u4e00\u4efd\u7ed3\u6784\u5dee\u5f02\u62c6\u6210\u4e24\u5957\u7edf\u8ba1\u53e3\u5f84\u3002<\/p>\n

\"\u540c\u4e00\u6bb5\u5e8f\u5217\uff0c\u4e24\u79cd\u9aa8\u67b6\u5750\u6807\u3002\u989d\u5916\u7684
\u989d\u5916\u7684 1400 bp \u5728\u56fe\u91cc\u90fd\u80fd\u627e\u5230\uff0c\u9010\u6837\u672c\u8c03\u7528\u5374\u6709\u5dee\u5f02\u3002<\/figcaption><\/figure>\n

\u4eba\u624b\u80fd\u505a\u4e00\u4e2a\u5f88\u5feb\u7684\u6838\u5bf9\u3002\u628a\u77ed\u9aa8\u67b6\u4e24\u4fa7\u8282\u70b9\u9996\u5c3e\u76f8\u63a5\uff0c\u5e94\u6062\u590d\u539f\u6765\u7684\u77ed\u5e8f\u5217\uff0c\u518d\u628a\u989d\u5916\u8282\u70b9\u6309\u8fb9\u7684\u65b9\u5411\u63d2\u5728\u4e2d\u95f4\uff0c\u5e94\u6062\u590d\u957f\u5e8f\u5217\u3002\u6362\u6210\u957f\u9aa8\u67b6\u65f6\uff0c\u4e00\u6761\u94fe\u7684\u4e09\u6bb5\u9996\u5c3e\u76f8\u63a5\u53ef\u4ee5\u8fd8\u539f\u957f\u5e8f\u5217\uff0c\u6cbf\u8df3\u8fc7\u4e2d\u6bb5\u7684\u90a3\u6761\u8fb9\u5219\u8fd8\u539f\u77ed\u5e8f\u5217\u3002\u8fd9\u4e2a\u68c0\u67e5\u53ea\u56de\u7b54\u56fe\u4e2d\u80fd\u5426\u62fc\u51fa\u4e24\u79cd\u5e8f\u5217\uff0c\u63a5\u4e0b\u6765\u6837\u672c\u5982\u4f55\u88ab\u5206\u914d\u5230\u8def\u5f84\u4e0a\uff0c\u8fd8\u8981\u53e6\u8bfb\u9010\u6837\u672c\u5206\u578b\u8f93\u51fa\u3002<\/p>\n

\u661f\u53f7\u548c\u70b9\u627f\u62c5\u4e0d\u540c\u7684\u4fe1\u606f<\/h2>\n

\u77ed\u9aa8\u67b6\u7684\u4e24\u6761\u6837\u672c\u7ed3\u679c\u90fd\u6709\u5b8c\u6574\u7684\u8def\u5f84\u680f\u3002\u77ed\u6837\u672c\u7684\u8def\u5f84\u4ee5\u661f\u53f7\u8868\u793a\u6c14\u6ce1\u5185\u90e8\u6ca1\u6709\u989d\u5916\u8282\u70b9\uff0c\u7d27\u90bb\u7684\u957f\u5ea6\u5b57\u6bb5\u660e\u786e\u4e3a\u96f6\u3002\u957f\u6837\u672c\u5bf9\u5e94\u7684\u662f\u989d\u5916\u8282\u70b9\u7684\u540d\u5b57\u548c\u957f\u5ea6\u4e00\u5343\u56db\u767e\u3002\u957f\u9aa8\u67b6\u7ed3\u679c\u5374\u662f\u4e24\u884c\u5404\u53ea\u6709\u4e00\u4e2a\u70b9\uff0c\u6ca1\u6709\u5e26\u51fa\u6837\u672c\u7684\u5185\u90e8\u8def\u5f84\u548c\u957f\u5ea6\u3002\u6253\u5f00\u666e\u901a\u56fe\u6bd4\u5bf9\u540e\uff0c\u77ed\u67e5\u8be2\u5206\u6210\u4e24\u6bb5\uff0c\u957f\u67e5\u8be2\u5206\u6210\u4e09\u6bb5\uff0c\u5404\u6bb5\u7684\u6620\u5c04\u8d28\u91cf\u90fd\u662f\u516d\u5341\uff0c\u4f46\u90fd\u6ca1\u6709\u4ee5\u4e00\u6761\u8bb0\u5f55\u8fde\u63a5\u6c14\u6ce1\u4e24\u4fa7\u3002\u5c40\u90e8\u80fd\u9ad8\u8d28\u91cf\u6bd4\u5230\u67d0\u4e2a\u7247\u6bb5\uff0c\u4e0e\u80fd\u591f\u8de8\u8fc7\u4e24\u4fa7\u951a\u70b9\u786e\u5b9a\u8d70\u4e86\u54ea\u6761\u7b49\u4f4d\u8def\u5f84\uff0c\u662f\u4e24\u4e2a\u53ef\u4ee5\u5206\u522b\u68c0\u67e5\u7684\u6761\u4ef6\u3002<\/p>\n

\u8fd9\u91cc\u4e0d\u5fc5\u6839\u636e\u771f\u503c\u66ff\u7a0b\u5e8f\u8865\u5199\u7b54\u6848\u3002\u6211\u4eec\u77e5\u9053\u957f\u6837\u672c\u5305\u542b\u90a3\u6bb5\u5e8f\u5217\uff0c\u662f\u56e0\u4e3a\u624b\u91cc\u6709\u5b83\u7684\u5b8c\u6574 FASTA\u3002\u82e5\u4ea4\u4ed8\u7684\u662f\u8fd9\u4e2a\u7248\u672c\u7684\u8c03\u7528\u8868\uff0c\u5c31\u5e94\u628a\u6ca1\u6709\u8def\u5f84\u7684\u4e24\u884c\u4fdd\u7559\u4e3a\u672a\u5224\u5b9a\uff0c\u53e6\u5217\u901a\u8fc7\u5e8f\u5217\u76f4\u63a5\u6838\u5b9e\u7684\u7ed3\u679c\u3002\u5728\u6ca1\u6709\u4eba\u5de5\u771f\u503c\u7684\u6750\u6599\u4e2d\uff0c\u8fd9\u79cd\u533a\u522b\u66f4\u91cd\u8981\u3002\u628a\u70b9\u5f53\u4f5c\u96f6\u957f\u5ea6\u7b49\u4f4d\u4f1a\u628a\u67e5\u4e0d\u6e05\u7684\u6837\u672c\u7b97\u8fdb\u7f3a\u5931\u7ec4\uff0c\u540e\u7eed\u4f30\u8ba1\u643a\u5e26\u6bd4\u4f8b\u6216\u4e0e\u8868\u578b\u505a\u6bd4\u8f83\u90fd\u4f1a\u53d7\u5f71\u54cd\u3002\u8981\u89e3\u51b3\u6b67\u4e49\uff0c\u53ef\u4ee5\u67e5\u770b\u67e5\u8be2\u7aef\u7684\u5206\u6bb5\u8303\u56f4\u3001\u6c14\u6ce1\u4e24\u4fa7\u7684\u56fe\u8fde\u63a5\u548c\u66f4\u957f\u7684\u5e8f\u5217\u951a\u70b9\uff0c\u518d\u51b3\u5b9a\u80fd\u5426\u4f5c\u51fa\u8865\u5145\u5206\u578b\u3002<\/p>\n

minigraph -cxggs -l10k -t2 short.fa long.fa > short-first.gfa\r\nminigraph -cxggs -l10k -t2 long.fa short.fa > long-first.gfa\r\nminigraph -cxasm -l10k --call short-first.gfa long.fa > long.calls.bed\r\nminigraph -cxasm -l10k long-first.gfa long.fa > long.alignments.gaf\r\n<\/code><\/pre>\n
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\u4e0b\u8f7d\u672c\u7bc7\u5b9e\u9a8c\u811a\u672c\u4e0e\u7ed3\u679c\uff0812 \u7bc7\u5408\u96c6 ZIP\uff09<\/a>\uff0c\u89e3\u538b\u540e\u6253\u5f00 082-minigraph<\/code> \u76ee\u5f55\u3002<\/p>\n
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