{"id":70560,"date":"2026-11-14T23:54:50","date_gmt":"2026-11-14T15:54:50","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=70560"},"modified":"2026-11-14T23:54:50","modified_gmt":"2026-11-14T15:54:50","slug":"minimap2-transcript-splice-preset-intron-gap","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/minimap2-transcript-splice-preset-intron-gap\/","title":{"rendered":"minimap2 \u5b9e\u8dd1\uff5c\u540c\u4e00\u6761\u8f6c\u5f55\u672c\uff0c\u4e3a\u4ec0\u4e48\u65e2\u80fd\u6bd4\u51fa\u4e00\u4e2a\u5185\u542b\u5b50\uff0c\u4e5f\u80fd\u53d8\u6210\u4e24\u6761\u5206\u6bb5\u8bb0\u5f55\uff1f"},"content":{"rendered":"
\n

\u957f\u8bfb\u957f\u8f6c\u5f55\u7ec4\u91cc\u4e00\u6761\u8bfb\u6bb5\u4ece\u4e00\u4e2a\u5916\u663e\u5b50\u8de8\u5230\u53e6\u4e00\u4e2a\u5916\u663e\u5b50\uff0c\u6d4f\u89c8\u5668\u6709\u65f6\u753b\u6210\u8de8\u5185\u542b\u5b50\u7684\u957f\u7ebf\uff0c\u6709\u65f6\u53ea\u7ed9\u51fa\u4e24\u4e2a\u5355\u72ec\u7684\u6bd4\u5bf9\u5757\u3002\u4e24\u5757\u90fd\u4e25\u4e1d\u5408\u7f1d\u5730\u843d\u5728\u6b63\u786e\u7684\u4f4d\u7f6e\uff0c\u6bd4\u5bf9\u8d28\u91cf\u4e5f\u5f88\u9ad8\u3002\u8fd9\u65f6\u662f\u51fa\u73b0\u4e86\u65b0\u7684\u878d\u5408\uff0c\u8fd8\u662f\u628a\u8f6c\u5f55\u672c\u6309\u57fa\u56e0\u7ec4\u8bfb\u6bb5\u6bd4\u4e86\u4e00\u904d\uff1f\u53ef\u4ee5\u5148\u8bbe\u8ba1\u4e00\u4e2a\u7b54\u6848\u5df2\u77e5\u7684\u526a\u63a5\u4f4d\u70b9\uff0c\u628a\u540c\u4e00\u6761\u5e8f\u5217\u53ea\u6539\u6bd4\u5bf9\u53c2\u6570\u9001\u5165 minimap2\uff0c\u770b\u770b\u4e24\u79cd\u663e\u793a\u5404\u9700\u8981\u4ec0\u4e48\u6761\u4ef6\u3002\u8fd9\u4e2a\u7ec3\u4e60\u4e5f\u80fd\u8bf4\u660e\uff0c\u505a\u878d\u5408\u6216\u65b0\u5f02\u6784\u4f53\u7b5b\u9009\u4e4b\u524d\uff0c\u4e3a\u4ec0\u4e48\u5e94\u8be5\u5148\u8fd8\u539f\u4e00\u6761\u5206\u5b50\u7684\u5168\u90e8\u6bd4\u5bf9\u3002minimap2 \u4f5c\u8005\u7684\u7528\u6cd5\u8bf4\u660e<\/a><\/p>\n

\u9020\u4e00\u4e2a\u8de8\u516d\u5343\u78b1\u57fa\u5185\u542b\u5b50\u7684\u5206\u5b50<\/h2>\n

\u6211\u4eec\u56fa\u5b9a\u968f\u673a\u79cd\u5b50\u751f\u6210\u4e00\u6761\u4eba\u5de5\u67d3\u8272\u4f53\uff0c\u4e24\u4e2a\u5916\u663e\u5b50\u5206\u522b\u957f\u56db\u767e\u516b\u5341\u548c\u4e94\u767e\u4e8c\u5341\u78b1\u57fa\u3002\u4e2d\u95f4\u63d2\u5165\u516d\u5343\u78b1\u57fa\u7684\u5185\u542b\u5b50\uff0c\u6b63\u5411\u53c2\u8003\u4e0a\u4ee5 GT \u5f00\u5934\u3001\u4ee5 AG \u7ed3\u5c3e\uff0c\u4e24\u7aef\u518d\u653e\u5165\u4e0d\u53c2\u4e0e\u8f6c\u5f55\u672c\u7684\u968f\u673a\u4fa7\u7ffc\u3002\u76f4\u63a5\u62fc\u63a5\u4e24\u4e2a\u5916\u663e\u5b50\u5f97\u5230\u4e00\u5343\u78b1\u57fa\u7684\u6210\u719f\u5206\u5b50\uff0c\u53e6\u5916\u751f\u6210\u5b83\u7684\u53cd\u5411\u4e92\u8865\uff0c\u5206\u522b\u8d4b\u4e88\u4e0d\u540c\u7684\u8bfb\u540d\u3002\u4e24\u4e2a\u8f93\u5165\u4ee3\u8868\u540c\u4e00\u6761\u8bbe\u8ba1\u5e8f\u5217\u7684\u4e24\u79cd\u6d4b\u5e8f\u65b9\u5411\uff0c\u53ef\u4ee5\u7528\u6765\u68c0\u67e5\u65b9\u5411\u7ffb\u8f6c\u4f1a\u6539\u53d8\u54ea\u4e9b\u5217\u3002\u6570\u636e\u6ca1\u6709\u4eba\u4e3a\u6dfb\u52a0\u6d4b\u5e8f\u9519\u8bef\uff0c\u4e5f\u6ca1\u6709\u7b2c\u4e8c\u5904\u76f8\u4f3c\u57fa\u56e0\uff0c\u4fbf\u4e8e\u628a\u5dee\u5f02\u5f52\u56e0\u5230\u672c\u8f6e\u6bd4\u8f83\u7684\u53c2\u6570\u3002<\/p>\n

\u4e00\u57fa\u95ed\u533a\u95f4\u4e0b\uff0c\u7b2c\u4e00\u6bb5\u5916\u663e\u5b50\u662f\u7b2c\u4e03\u767e\u96f6\u4e00\u4f4d\u81f3\u7b2c\u4e00\u5343\u4e00\u767e\u516b\u5341\u4f4d\uff0c\u7b2c\u4e8c\u6bb5\u4ece\u7b2c\u4e03\u5343\u4e00\u767e\u516b\u5341\u4e00\u4f4d\u81f3\u7b2c\u4e03\u5343\u4e03\u767e\u4f4d\u3002\u5c06\u4e00\u5343\u78b1\u57fa\u7684\u67e5\u8be2\u6bd4\u56de\u57fa\u56e0\u7ec4\u540e\uff0c\u6211\u4eec\u9884\u671f\u80fd\u770b\u89c1\u4e24\u4e2a\u5916\u663e\u5b50\u8fb9\u754c\uff0c\u4e5f\u80fd\u67e5\u51fa\u4e00\u6761\u8bb0\u5f55\u5230\u5e95\u7528\u6389\u591a\u5c11\u67e5\u8be2\u78b1\u57fa\u3002\u5728\u4e09\u4e2a\u8fd0\u884c\u76ee\u5f55\u4fdd\u7559\u76f8\u540c\u7684\u53c2\u8003\u3001\u8bfb\u6bb5\u540d\u79f0\u548c\u8f93\u5165\u987a\u5e8f\uff0c\u7528\u540c\u4e00\u7248 minimap2 \u751f\u6210 SAM \u5e76\u5199\u51fa\u78b1\u57fa\u5dee\u5f02\u6807\u7b7e\u3002\u4ece\u6587\u4ef6\u91cc\u9010\u5217\u8bfb\u53d6\u8d77\u70b9\u3001\u6807\u5fd7\u4f4d\u3001\u6bd4\u5bf9\u8d28\u91cf\u3001\u64cd\u4f5c\u4e32\u548c\u7f16\u8f91\u8ddd\u79bb\uff0c\u907f\u514d\u53ea\u51ed\u6d4f\u89c8\u5668\u7f29\u653e\u540e\u7684\u753b\u6cd5\u5224\u65ad\u3002<\/p>\n

\u5148\u770b\u540c\u4e00\u8bfb\u540d\u6709\u51e0\u884c\uff0c\u518d\u51b3\u5b9a\u5982\u4f55\u8ba1\u7b97\u8986\u76d6<\/h2>\n

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\n\n\n\n\n\n\n\n
\u8fd0\u884c\u65b9\u5f0f<\/th>\n\u6bcf\u4e2a\u8bfb\u540d\u7684\u8bb0\u5f55\u6570<\/th>\n\u4e3b\u8bb0\u5f55<\/th>\n\u8865\u5145\u8bb0\u5f55<\/th>\n<\/tr>\n<\/thead>\n
\u57fa\u56e0\u7ec4 map-ont<\/code><\/td>\n2<\/td>\n480S520M<\/code><\/td>\n480M520H<\/code><\/td>\n<\/tr>\n
\u526a\u63a5 splice<\/code><\/td>\n1<\/td>\n480M6000N520M<\/code><\/td>\n\u65e0<\/td>\n<\/tr>\n
\u526a\u63a5\u4f46\u9650\u5b9a -G 1000<\/code><\/td>\n2<\/td>\n480S520M<\/code><\/td>\n480M520H<\/code><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n
\"\u4e00\u6761\u5206\u5b50\u6709\u51e0\u4e2a\u6bd4\u5bf9\u3002\u540c\u4e00\u6bb5\u6210\u719f\u8f6c\u5f55\u672c\u6362\u4e09\u4e2a\u53c2\u6570\u7ec4\u5408\uff0c\u6bd4\u5bf9\u8d28\u91cf\u59cb\u7ec8\u4e3a
\u540c\u4e00\u6bb5\u6210\u719f\u8f6c\u5f55\u672c\u6362\u4e09\u4e2a\u53c2\u6570\u7ec4\u5408\uff0c\u6bd4\u5bf9\u8d28\u91cf\u59cb\u7ec8\u4e3a 60\u3002<\/figcaption><\/figure>\n

\u4e24\u4e2a\u5916\u663e\u5b50\u7684\u652f\u6301\u4e5f\u4e0d\u80fd\u4ec5\u7528\u57fa\u56e0\u603b\u8bfb\u6570\u4ee3\u66ff\u3002\u53ea\u843d\u5728\u7b2c\u4e8c\u4e2a\u5916\u663e\u5b50\u91cc\u7684\u53e6\u4e00\u6761\u8bfb\u6bb5\u4f1a\u589e\u52a0\u5b83\u7684\u8986\u76d6\uff0c\u5374\u6ca1\u6709\u7a7f\u8fc7\u63a5\u5934\u3002\u505a\u7ed3\u679c\u8868\u65f6\uff0c\u5728\u63a5\u5934\u4e24\u4fa7\u5206\u522b\u8bbe\u7f6e\u6700\u5c0f\u951a\u5b9a\u957f\u5ea6\uff0c\u5e76\u6ce8\u660e\u540c\u4e00\u5206\u5b50\u5728\u540c\u4e00\u63a5\u5934\u53ea\u8ba1\u4e00\u6b21\uff0c\u8fd9\u6837\u6709\u6548\u652f\u6301\u6570\u624d\u53ef\u4ee5\u4e0e\u8986\u76d6\u5ea6\u56fe\u5bf9\u7167\u3002<\/p>\n

\u5b9e\u8dd1\u7ecf\u9a8c\uff5c\u4e00\u4e2a\u6700\u5927\u95f4\u9694\u5c31\u80fd\u8ba9\u526a\u63a5\u8fde\u63a5\u6d88\u5931<\/h2>\n
minimap2 -t 1 -a --cs=short -x map-ont ref.fa reads.fa > genomic.sam\r\nminimap2 -t 1 -a --cs=short -x splice ref.fa reads.fa > splice.sam\r\nminimap2 -t 1 -a --cs=short -x splice -G 1000 ref.fa reads.fa > limited.sam\r\nsamtools view splice.sam | cut -f1-6\r\n<\/code><\/pre>\n
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