{"id":72651,"date":"2026-11-15T08:36:02","date_gmt":"2026-11-15T00:36:02","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=72651"},"modified":"2026-11-15T08:36:02","modified_gmt":"2026-11-15T00:36:02","slug":"semibin2-kmer-n-softmask-effective-sequence","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/semibin2-kmer-n-softmask-effective-sequence\/","title":{"rendered":"SemiBin2 \u8f93\u5165\u591f\u957f\u5c31\u80fd\u63d0\u4f9b\u6709\u6548\u7279\u5f81\u5417\uff1f\u5b9e\u8dd1\u68c0\u67e5\u5c0f\u5199\u78b1\u57fa\u3001N \u548c\u4f4e\u590d\u6742\u5ea6\u5e8f\u5217"},"content":{"rendered":"
\n

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\u56db\u79cd\u78b1\u57fa\u6392\u5217\u6210\u957f\u5ea6\u56db\u7684\u8bcd\uff0c\u603b\u5171\u6709\u4e8c\u767e\u4e94\u5341\u516d\u79cd\u3002\u628a\u53cd\u5411\u4e92\u8865\u7684\u8bcd\u5f52\u5230\u540c\u4e00\u7c7b\u4ee5\u540e\uff0c\u672c\u4f8b\u8f93\u51fa\u4e00\u767e\u4e09\u5341\u516d\u5217\uff0c\u5176\u4e2d\u6709\u5341\u516d\u79cd\u56db\u78b1\u57fa\u8bcd\u81ea\u8eab\u4e0e\u53cd\u5411\u4e92\u8865\u76f8\u540c\u3002\u8fd9\u6837\u7684\u5f52\u5e76\u6709\u52a9\u4e8e\u51cf\u5c11\u5e8f\u5217\u65b9\u5411\u5bf9\u7ec4\u6210\u8868\u793a\u7684\u5f71\u54cd\uff0c\u4f46\u4e5f\u610f\u5473\u7740\u7279\u5f81\u5411\u91cf\u4e0d\u4f1a\u4fdd\u7559\u6240\u6709\u4f4d\u7f6e\u548c\u6392\u5217\u5173\u7cfb\u3002\u4e24\u4e2a\u7247\u6bb5\u5373\u4f7f\u9891\u7387\u63a5\u8fd1\uff0c\u4ecd\u7136\u53ef\u80fd\u5177\u6709\u4e0d\u540c\u7684\u57fa\u56e0\u987a\u5e8f\u3001\u5c40\u90e8\u8fde\u63a5\u548c\u529f\u80fd\u5185\u5bb9\uff0c\u540e\u7eed\u7684\u7ed3\u6784\u5224\u65ad\u9700\u8981\u56de\u5230\u5177\u4f53\u5e8f\u5217\u4e0e\u5176\u4ed6\u8bc1\u636e\u3002<\/p>\n

\"\u5168
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\u5b9e\u8dd1\u7ecf\u9a8c \u00b7 \u516d\u6761\u8f93\u5165\u7ecf\u8fc7\u540c\u4e00\u4e2a\u6b63\u5f0f\u547d\u4ee4\u5165\u53e3<\/h2>\n

\u5b89\u88c5\u8fd0\u884c SemiBin2 2.6.0\uff0c\u56fa\u5b9a\u968f\u673a\u79cd\u5b50\u751f\u6210\u4e00\u6761\u4e00\u4e07\u78b1\u57fa\u7684\u6807\u51c6\u5e8f\u5217\uff0c\u518d\u6784\u9020\u51e0\u4e2a\u5bf9\u7167\u3002\u5c0f\u5199\u7248\u672c\u53ea\u6539\u53d8\u5b57\u6bcd\u5927\u5c0f\u5199\uff0c\u5e8f\u5217\u4f4d\u7f6e\u5b8c\u5168\u76f8\u540c\u3002\u5927\u91cf\u672a\u77e5\u78b1\u57fa\u7248\u672c\u4fdd\u7559\u524d\u4e00\u767e\u4e2a\u6807\u51c6\u78b1\u57fa\uff0c\u5176\u4f59\u4e5d\u5343\u4e5d\u767e\u4e2a\u4f4d\u7f6e\u6539\u4e3a N\u3002\u53e6\u51c6\u5907\u4e00\u6761\u5168 N \u5e8f\u5217\u3001\u4e00\u6761\u5168 A \u5e8f\u5217\uff0c\u4ee5\u53ca\u4e00\u6761\u4e00\u5343\u4e5d\u767e\u4e5d\u5341\u4e5d\u78b1\u57fa\u7684\u6807\u51c6\u5e8f\u5217\u3002\u53c2\u4e0e\u95e8\u69db\u56fa\u5b9a\u4e3a\u4e24\u5343\u78b1\u57fa\uff0c\u7136\u540e\u5b9e\u9645\u8c03\u7528\u5355\u6837\u672c\u5e8f\u5217\u7279\u5f81\u751f\u6210\u5165\u53e3\uff0c\u4ec5\u8f93\u51fa\u77ed\u8bcd\u7ec4\u6210\u8868\u3002\u8f93\u5165\u751f\u6210\u811a\u672c\u4e0e\u5b9e\u6d4b\u7ed3\u679c<\/a><\/p>\n

\u8fd0\u884c\u73af\u5883\u4e2d\u7684 NumPy \u4e3a 2.4.3\u3001pandas \u4e3a 3.1.1\u3001torch \u4e3a 2.11.0\u3002\u672c\u6b21\u5b8c\u6210\u5230\u7ec4\u6210\u7279\u5f81\u8868\uff0c\u672a\u8fdb\u884c\u6a21\u578b\u8bad\u7ec3\u548c\u6700\u7ec8\u5206\u7bb1\uff0c\u6240\u4ee5\u7ed3\u679c\u56de\u7b54\u7684\u662f\u8f93\u5165\u5728\u7279\u5f81\u9636\u6bb5\u5982\u4f55\u88ab\u8868\u793a\uff0c\u4e0d\u80fd\u636e\u6b64\u8bc4\u4ef7\u67d0\u79cd\u672a\u77e5\u78b1\u57fa\u6bd4\u4f8b\u4e0b\u7684\u5206\u7bb1\u51c6\u786e\u7387\u3002\u6240\u6709\u7edf\u8ba1\u90fd\u4ece\u5b9e\u9645\u751f\u6210\u7684\u8868\u4e2d\u8bfb\u53d6\uff0c\u53e6\u5916\u72ec\u7acb\u8ba1\u7b97\u4e86\u6bcf\u6761\u539f\u59cb\u5e8f\u5217\u4e2d\u53ea\u542b\u6807\u51c6\u78b1\u57fa\u7684\u56db\u78b1\u57fa\u7a97\u53e3\u6570\uff0c\u7528\u6765\u6838\u5bf9\u77e9\u9635\u5230\u5e95\u4f9d\u636e\u4e86\u591a\u5c11\u53ef\u786e\u5b9a\u7684\u5e8f\u5217\u4fe1\u606f\u3002<\/p>\n

python3 111-semibin2\/run.py work111\r\n\r\n# \u5355\u72ec\u91cd\u590d\u5b98\u65b9\u7279\u5f81\u751f\u6210\u5165\u53e3\r\nSemiBin2 generate_sequence_features_single \\\r\n  -i work111\/input.fa -o features_again --kmer -m 2000\r\n<\/code><\/pre>\n
\n\n\n\n\n\n\n\n\n\n\n
\u8f93\u5165<\/th>\n\u957f\u5ea6<\/th>\n\u6807\u51c6\u78b1\u57fa\u6570<\/th>\n\u6709\u6548\u56db\u78b1\u57fa\u7a97\u53e3<\/th>\n\u7279\u5f81\u8868\u662f\u5426\u6709\u8fd9\u4e00\u884c<\/th>\n<\/tr>\n<\/thead>\n
\u6807\u51c6\u968f\u673a\u5e8f\u5217<\/td>\n10,000<\/td>\n10,000<\/td>\n9,997<\/td>\n\u6709<\/td>\n<\/tr>\n
\u5b8c\u5168\u76f8\u540c\u7684\u5c0f\u5199\u7248\u672c<\/td>\n10,000<\/td>\n10,000<\/td>\n9,997<\/td>\n\u6709<\/td>\n<\/tr>\n
\u4fdd\u7559\u8fde\u7eed\u4e00\u767e\u78b1\u57fa\uff0c\u5176\u4f59\u4e3a N<\/td>\n10,000<\/td>\n100<\/td>\n97<\/td>\n\u6709<\/td>\n<\/tr>\n
\u5168\u90e8\u4e3a N<\/td>\n10,000<\/td>\n0<\/td>\n0<\/td>\n\u6709<\/td>\n<\/tr>\n
\u5168\u90e8\u4e3a A<\/td>\n10,000<\/td>\n10,000<\/td>\n9,997<\/td>\n\u6709<\/td>\n<\/tr>\n
\u4f4e\u4e8e\u5f53\u524d\u957f\u5ea6\u95e8\u69db<\/td>\n1,999<\/td>\n1,999<\/td>\n1,996<\/td>\n\u65e0<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n
\u6700\u540e\u4e00\u6761\u6807\u51c6\u5e8f\u5217\u56e0\u4e3a\u957f\u5ea6\u4e0d\u591f\u6ca1\u6709\u8fdb\u5165\u8868\uff0c\u800c\u5168 N \u5e8f\u5217\u56e0\u603b\u957f\u8db3\u591f\u4fdd\u7559\u4e86\u4e0b\u6765\u3002\u5176\u4ed6\u4e94\u884c\u90fd\u6709\u4e00\u767e\u4e09\u5341\u516d\u5217\uff0c\u6570\u503c\u5168\u90e8\u6709\u9650\uff0c\u52a0\u603b\u5728\u6d6e\u70b9\u8bef\u5dee\u8303\u56f4\u5185\u7b49\u4e8e\u4e00\u3002\u8fd9\u4e2a\u7ed3\u679c\u8bf4\u660e\uff0c\u5f53\u524d\u957f\u5ea6\u7b5b\u9009\u4f9d\u636e\u7684\u662f\u8bb0\u5f55\u957f\u5ea6\uff0c\u6570\u503c\u683c\u5f0f\u68c0\u67e5\u4e5f\u53ea\u80fd\u786e\u8ba4\u8ba1\u7b97\u4ea7\u751f\u4e86\u53ef\u5b58\u50a8\u7684\u6570\u3002\u8981\u5224\u65ad\u6709\u591a\u5c11\u771f\u5b9e\u53ef\u786e\u5b9a\u7684\u7ec4\u6210\u4fe1\u606f\uff0c\u9700\u8981\u72ec\u7acb\u770b\u6709\u6548\u7a97\u53e3\u3002\u628a\u8fd9\u5217\u7edf\u8ba1\u653e\u5728\u77e9\u9635\u65c1\u8fb9\uff0c\u4f1a\u8ba9\u5f88\u591a\u4ec5\u770b\u884c\u6570\u65e0\u6cd5\u53d1\u73b0\u7684\u95ee\u9898\u76f4\u63a5\u663e\u73b0\u3002<\/p>\n
\u4e3a\u4ec0\u4e48\u5168 N \u8f93\u5165\u8fd8\u80fd\u5f97\u5230\u4e00\u884c\u6574\u9f50\u7684\u9891\u7387<\/h2>\n
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\u56e0\u6b64\u5168 N \u884c\u770b\u8d77\u6765\u975e\u5e38\u5747\u5300\uff0c\u5374\u6ca1\u6709\u89c2\u5bdf\u5230\u4efb\u4f55\u4e00\u79cd\u786e\u5b9a\u7684\u56db\u6838\u82f7\u9178\u3002\u8fd9\u79cd\u5747\u5300\u6765\u81ea\u5e73\u6ed1\u89c4\u5219\u3002\u771f\u5b9e\u5e8f\u5217\u7684\u9891\u7387\u63a5\u8fd1\u5747\u5300\uff0c\u5219\u53ef\u80fd\u6765\u81ea\u5b9e\u9645\u89c2\u5bdf\u5230\u4e86\u5f88\u591a\u4e0d\u540c\u8bcd\u3002\u4e24\u8005\u5728\u6570\u503c\u8868\u4e0a\u53ef\u4ee5\u76f8\u4f3c\uff0c\u6570\u636e\u6765\u6e90\u5374\u4e0d\u540c\u3002\u82e5\u628a\u77e9\u9635\u7684\u6709\u9650\u503c\u6bd4\u4f8b\u3001\u662f\u5426\u6709\u7a7a\u5355\u5143\u683c\u6216\u6bcf\u884c\u4e4b\u548c\u4f5c\u4e3a\u5168\u90e8\u8d28\u63a7\uff0c\u524d\u8005\u5b8c\u5168\u53ef\u80fd\u901a\u8fc7\u3002\u52a0\u5165\u6709\u6548\u7a97\u53e3\u6570\u4ee5\u540e\uff0c\u5c31\u80fd\u77e5\u9053\u54ea\u4e9b\u884c\u7684\u7ec4\u6210\u4e3b\u8981\u7531\u89c2\u6d4b\u652f\u6491\uff0c\u54ea\u4e9b\u884c\u53ea\u4f53\u73b0\u4e86\u6570\u503c\u5e73\u6ed1\u3002<\/p>\n
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\u5168 A \u5e8f\u5217\u5219\u5c55\u793a\u53e6\u4e00\u4e2a\u65b9\u5411\u3002\u5b83\u6709\u4e5d\u5343\u4e5d\u767e\u4e5d\u5341\u4e03\u4e2a\u5408\u6cd5\u7a97\u53e3\uff0c\u6807\u51c6\u78b1\u57fa\u6bd4\u4f8b\u4e3a\u767e\u5206\u4e4b\u767e\uff0c\u4f46\u51e0\u4e4e\u5168\u90e8\u6982\u7387\u96c6\u4e2d\u5728\u540c\u4e00\u4e2a\u7ec4\u6210\u7279\u5f81\u4e0a\uff0c\u5b9e\u9645\u6700\u5927\u9891\u7387\u7ea6\u4e3a\u96f6\u70b9\u4e5d\u4e5d\u4e5d\u4e5d\u4e5d\u4e5d\u516b\u516d\u4e94\u3002\u6709\u6548\u7a97\u53e3\u591a\uff0c\u5e76\u4e0d\u4fdd\u8bc1\u5b83\u4eec\u63d0\u4f9b\u591a\u6837\u4e14\u53ef\u533a\u5206\u7684\u7ec4\u6210\u4fe1\u53f7\u3002\u56e0\u6b64\u5e8f\u5217\u8d28\u63a7\u8fd8\u5e94\u770b\u4f4e\u590d\u6742\u5ea6\u3001\u540c\u805a\u7269\u548c\u5c40\u90e8\u91cd\u590d\u3002\u628a\u5168 A \u4e0e\u5168 N \u653e\u5728\u4e00\u8d77\uff0c\u53ef\u4ee5\u770b\u5230\u4e24\u4e2a\u540c\u6837\u957f\u3001\u540c\u6837\u6570\u503c\u5b8c\u6574\u7684\u8f93\u5165\uff0c\u4e00\u4e2a\u51e0\u4e4e\u6ca1\u6709\u7ec4\u6210\u591a\u6837\u6027\uff0c\u4e00\u4e2a\u6ca1\u6709\u786e\u5b9a\u7684\u7a97\u53e3\u89c2\u5bdf\u3002<\/p>\n
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