{"id":73319,"date":"2026-11-15T16:20:14","date_gmt":"2026-11-15T08:20:14","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=73319"},"modified":"2026-11-15T16:20:14","modified_gmt":"2026-11-15T08:20:14","slug":"hic-pro-fragment-classification-dedup-matrix-practice","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/hic-pro-fragment-classification-dedup-matrix-practice\/","title":{"rendered":"HiC-Pro \u5b9e\u8dd1\u6307\u5357\u2014\u2014\u4ece\u9176\u5207\u7247\u6bb5\u5230\u6709\u6548\u63a5\u89e6\uff0c\u600e\u6837\u6838\u5bf9\u8fc7\u6ee4\u3001\u53bb\u91cd\u548c\u77e9\u9635\u8ba1\u6570"},"content":{"rendered":"
\n

\u6bd4\u5bf9\u7387\u4e0d\u4f4e\uff0c\u6700\u540e\u7559\u4e0b\u7684\u6709\u6548\u63a5\u89e6\u5374\u5f88\u5c11\uff0c\u8fd9\u662f Hi-C \u5206\u6790\u91cc\u5f88\u5bb9\u6613\u8ba9\u4eba\u7126\u8651\u7684\u60c5\u51b5\u3002\u76f4\u63a5\u628a\u5b83\u5f52\u56e0\u4e8e\u5efa\u5e93\u5931\u8d25\uff0c\u53ef\u80fd\u9519\u8fc7\u53c2\u8003\u6ce8\u91ca\u3001\u7b5b\u9009\u6761\u4ef6\u6216\u7248\u672c\u884c\u4e3a\u7684\u5f71\u54cd\u3002\u6709\u6548\u63a5\u89e6\u4e0d\u662f\u201c\u4e24\u4e2a\u7aef\u90fd\u6bd4\u5bf9\u4e0a\u201d\u7684\u540c\u4e49\u8bcd\uff0c\u5b83\u8fd8\u7ecf\u8fc7\u7247\u6bb5\u5f52\u5c5e\u3001\u4ea7\u7269\u5206\u7c7b\u3001\u8ddd\u79bb\u8fc7\u6ee4\u548c\u53bb\u91cd\u3002\u53ea\u6709\u628a\u63a5\u89e6\u6570\u91cf\u6cbf\u7740\u8fd9\u6761\u8def\u5f84\u9010\u6b65\u6838\u5bf9\uff0c\u624d\u77e5\u9053\u635f\u5931\u53d1\u751f\u5728\u54ea\u91cc\u3002<\/p>\n

\u672c\u6587\u5b9e\u9645\u8fd0\u884c HiC-Pro \u7684\u9176\u5207\u3001\u63a5\u89e6\u5206\u7c7b\u3001\u5408\u5e76\u53bb\u91cd\u53ca\u539f\u59cb\u77e9\u9635\u6784\u5efa\u6a21\u5757\u3002\u4f7f\u7528\u4e24\u6761\u81ea\u7f16\u53c2\u8003\u5e8f\u5217\u548c\u5341\u4e8c\u5bf9\u624b\u5de5\u7f16\u5199\u7684\u6bd4\u5bf9\u8bb0\u5f55\uff0c\u6ca1\u6709\u8fd0\u884c\u6bd4\u5bf9\u5668\uff0c\u4e5f\u6ca1\u6709\u6267\u884c\u77e9\u9635\u7684\u8fed\u4ee3\u6821\u6b63\u3002\u8fd9\u6837\u505a\u7684\u76ee\u7684\u662f\u9694\u79bb\u51e0\u7c7b\u5177\u4f53\u9519\u8bef\uff0c\u4e0d\u80fd\u636e\u6b64\u8bc4\u4ef7\u771f\u5b9e\u6587\u5e93\u8d28\u91cf\u3001\u8fd0\u884c\u901f\u5ea6\u6216\u5de5\u5177\u6574\u4f53\u51c6\u786e\u7387\u3002<\/p>\n

\"\u6709\u6548\u63a5\u89e6\uff0c\u9010\u6b65\u6838\u5bf9\u300212
12 \u5bf9\u4eba\u5de5\u6bd4\u5bf9\uff0c\u8ffd\u8e2a\u7247\u6bb5\u5206\u7c7b\u3001\u53bb\u91cd\u548c\u77e9\u9635\u8ba1\u6570<\/figcaption><\/figure>\n

\u4e00\u3001\u5b89\u88c5\u6210\u529f\u540e\uff0c\u8fd8\u8981\u6838\u5b9e\u771f\u6b63\u8fd0\u884c\u7684\u7248\u672c<\/h2>\n

\u672c\u6b21\u83b7\u53d6\u5b98\u65b9\u9879\u76ee\u94fe\u63a5\u7684\u5bb9\u5668\uff0c\u56fa\u5b9a\u955c\u50cf\u6458\u8981\u540e\u8fd0\u884c\uff0c\u7a0b\u5e8f\u5b9e\u9645\u62a5\u544a HiC-Pro 3.0.0\uff0c\u5185\u90e8\u4f7f\u7528 Python 3.7.6 \u548c bx-python 0.8.8\u3002\u955c\u50cf\u7684\u53ef\u79fb\u52a8\u6807\u7b7e\u4e0d\u80fd\u66ff\u4ee3\u7a0b\u5e8f\u7248\u672c\u53f7\uff0c\u5c24\u5176\u5728\u590d\u73b0\u65e7\u9879\u76ee\u65f6\uff0c\u4e0d\u80fd\u770b\u5230\u6807\u7b7e\u5199\u7740\u6700\u65b0\uff0c\u5c31\u9ed8\u8ba4\u91cc\u9762\u7684\u8f6f\u4ef6\u4e5f\u662f\u6700\u65b0\u53d1\u5e03\u7248\u672c\u3002<\/p>\n

\u53e6\u4e00\u4e2a\u5b9e\u9645\u9047\u5230\u7684\u95ee\u9898\u662f\uff0c\u4e3b\u7a0b\u5e8f\u6ca1\u6709\u76f4\u63a5\u51fa\u73b0\u5728\u9ed8\u8ba4\u547d\u4ee4\u641c\u7d22\u8def\u5f84\u4e2d\u3002\u5bb9\u5668\u5df2\u7ecf\u4e0b\u8f7d\u6210\u529f\uff0c\u4f46\u76f4\u63a5\u6267\u884c\u7a0b\u5e8f\u540d\u4ecd\u62a5\u627e\u4e0d\u5230\u547d\u4ee4\u3002\u4f7f\u7528\u5b89\u88c5\u76ee\u5f55\u5185\u7684\u5b8c\u6574\u8def\u5f84\u540e\u624d\u6b63\u5e38\u8fd4\u56de\u7248\u672c\u3002\u9047\u5230\u8fd9\u7c7b\u60c5\u51b5\uff0c\u5148\u68c0\u67e5\u7a0b\u5e8f\u4f4d\u7f6e\u548c\u73af\u5883\u53d8\u91cf\uff0c\u4e0d\u5fc5\u9a6c\u4e0a\u91cd\u65b0\u5b89\u88c5\u6240\u6709\u4f9d\u8d56\u3002<\/p>\n

IMAGE=nservant\/hicpro@sha256:273eec78a98e32e994315b4e059a1cf27c9e9c9e97bfa8dfceef03c5640cf29d\r\ndocker pull "$IMAGE"\r\ndocker run --rm "$IMAGE" \/HiC-Pro_3.0.0\/bin\/HiC-Pro -v\r\n<\/code><\/pre>\n
\u540e\u9762\u7684\u6570\u503c\u90fd\u9650\u5b9a\u4e8e\u8fd9\u4e2a\u56fa\u5b9a\u73af\u5883\u3002\u9879\u76ee\u7684\u603b\u4f53\u80fd\u529b\u4e0e\u5b89\u88c5\u65b9\u5f0f\u53ef\u4ee5\u53c2\u8003\u5b98\u65b9\u4ed3\u5e93<\/a>\uff0c\u4f46\u672c\u6587\u4f7f\u7528\u7684\u65e7\u7248\u5bb9\u5668\u4e0d\u80fd\u88ab\u7406\u89e3\u4e3a\u5bf9\u5f53\u524d\u751f\u4ea7\u5206\u6790\u7248\u672c\u7684\u63a8\u8350\u3002\u5b8c\u6574\u8f93\u5165\u751f\u6210\u5668\u3001\u8c03\u7528\u8bb0\u5f55\u548c\u9884\u671f\u8f93\u51fa\u4fdd\u5b58\u5728\u5b9e\u8dd1\u590d\u73b0\u5305<\/a>\u3002<\/p>\n
\u4e8c\u3001\u9176\u5207\u6587\u4ef6\u8981\u548c\u771f\u6b63\u4f7f\u7528\u7684\u53c2\u8003\u5e8f\u5217\u4e00\u81f4<\/h2>\n
\u6211\u4eec\u6784\u9020\u4e00\u6761\u516d\u5343\u78b1\u57fa\u548c\u4e00\u6761\u4e09\u5343\u78b1\u57fa\u7684\u865a\u62df\u67d3\u8272\u4f53\uff0c\u6bcf\u9694\u4e00\u5343\u78b1\u57fa\u653e\u7f6e\u4e00\u4e2a\u6307\u5b9a\u5207\u5272\u5e8f\u5217\u3002\u8c03\u7528\u5de5\u5177\u540e\u5f97\u5230\u4e5d\u4e2a\u7247\u6bb5\uff0c\u6bcf\u6bb5\u4e00\u5343\u78b1\u57fa\u3002\u8fd9\u91cc\u7684\u89c4\u5219\u662f\u6211\u4eec\u4eba\u4e3a\u8bbe\u7f6e\u7684\uff0c\u771f\u5b9e\u57fa\u56e0\u7ec4\u4e0a\u7684\u7247\u6bb5\u957f\u5ea6\u5206\u5e03\u4e0d\u4f1a\u5982\u6b64\u5747\u5300\u3002<\/p>\n
python \/HiC-Pro_3.0.0\/bin\/utils\/digest_genome.py \\\r\n  -r '^GATC' -o fragments.bed toy.fa\r\n<\/code><\/pre>\n
\u5207\u5272\u4f4d\u7f6e\u7528\u7b26\u53f7\u660e\u786e\u6807\u51fa\uff0c\u4e0d\u80fd\u53ea\u5199\u8bc6\u522b\u5e8f\u5217\u800c\u5ffd\u7565\u5207\u70b9\u3002\u9176\u5207\u7247\u6bb5\u533a\u95f4\u4e0e\u63a5\u5934\u8fde\u63a5\u5e8f\u5217\u4e5f\u4e0d\u662f\u540c\u4e00\u4e2a\u6982\u5ff5\uff0c\u524d\u8005\u7528\u6765\u7ed9\u6bd4\u5bf9\u8bb0\u5f55\u5206\u914d\u53c2\u8003\u7247\u6bb5\uff0c\u540e\u8005\u6d89\u53ca\u8bfb\u6bb5\u4e2d\u8fde\u63a5\u4f4d\u7f6e\u7684\u5904\u7406\u3002\u6df7\u7528\u4e24\u8005\u4f1a\u8ba9\u53c2\u6570\u770b\u4e0a\u53bb\u90fd\u5f88\u201c\u50cf\u6b63\u786e\u7684\u5e8f\u5217\u201d\uff0c\u5b9e\u9645\u5374\u4f5c\u7528\u4e8e\u4e0d\u540c\u6b65\u9aa4\u3002\u5de5\u5177\u7684\u8f93\u5165\u7ea6\u5b9a\u89c1\u5b98\u65b9\u8f85\u52a9\u5de5\u5177\u8bf4\u660e<\/a>\u3002<\/p>\n
\u5efa\u7acb\u7247\u6bb5\u6587\u4ef6\u540e\uff0c\u81f3\u5c11\u68c0\u67e5\u4e09\u4e2a\u95ee\u9898\u3002\u67d3\u8272\u4f53\u540d\u79f0\u662f\u5426\u4e0e\u6bd4\u5bf9\u5934\u90e8\u4e00\u81f4\uff0c\u7247\u6bb5\u8fb9\u754c\u662f\u5426\u843d\u5728\u53c2\u8003\u957f\u5ea6\u5185\uff0c\u53c2\u8003\u662f\u5426\u548c\u521b\u5efa\u6bd4\u5bf9\u7d22\u5f15\u65f6\u5b8c\u5168\u76f8\u540c\u3002\u4ec5\u68c0\u67e5\u6587\u4ef6\u6269\u5c55\u540d\u65e0\u6cd5\u53d1\u73b0\u8fd9\u4e9b\u95ee\u9898\uff0c\u80fd\u591f\u88ab\u7a0b\u5e8f\u8bfb\u53d6\u7684\u6ce8\u91ca\uff0c\u4e5f\u53ef\u80fd\u5b8c\u5168\u4e0d\u80fd\u8986\u76d6\u5f53\u524d\u6bd4\u5bf9\u8bb0\u5f55\u3002<\/p>\n
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\u4e09\u3001\u7247\u6bb5\u5f52\u5c5e\u7684\u4f4d\u7f6e\uff0c\u4e0d\u4e00\u5b9a\u662f\u6700\u7ec8\u8f93\u51fa\u7684\u4f4d\u7f6e<\/h2>\n
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\u8fd9\u4e2a\u4f8b\u5b50\u8fd8\u63d0\u9192\u6211\u4eec\u533a\u5206\u5750\u6807\u4f53\u7cfb\u3002\u7247\u6bb5\u533a\u95f4\u4f7f\u7528\u96f6\u57fa\u3001\u5de6\u95ed\u53f3\u5f00\u8868\u793a\uff0c\u8f93\u51fa\u63a5\u89e6\u4f4d\u7f6e\u5219\u4f7f\u7528\u4e00\u57fa\u5750\u6807\u3002\u5bf9\u8de8\u7247\u6bb5\u8fb9\u754c\u7684\u8bb0\u5f55\uff0c\u8981\u540c\u65f6\u5217\u51fa\u539f\u59cb\u6bd4\u5bf9\u8d77\u70b9\u3001\u6bd4\u5bf9\u957f\u5ea6\u3001\u65b9\u5411\u3001\u4e2d\u70b9\u548c\u8f93\u51fa\u4e94\u7aef\u4f4d\u7f6e\u3002\u628a\u8fd9\u4e9b\u91cf\u5199\u5728\u4e00\u884c\u91cc\uff0c\u901a\u5e38\u6bd4\u53cd\u590d\u770b\u70ed\u56fe\u66f4\u5bb9\u6613\u53d1\u73b0\u95ee\u9898\u3002<\/p>\n
\u5bf9\u4e8e\u5305\u542b\u590d\u6742\u526a\u63a5\u6216\u7279\u6b8a\u6bd4\u5bf9\u64cd\u4f5c\u7684\u8bfb\u6bb5\uff0c\u8fd8\u5e94\u68c0\u67e5\u5b9e\u9645\u6bd4\u5bf9\u8868\u793a\u3002\u672c\u6587\u53ea\u6709\u7b80\u5355\u7684\u8fde\u7eed\u4e94\u5341\u78b1\u57fa\u6bd4\u5bf9\uff0c\u6ca1\u6709\u8986\u76d6\u6240\u6709\u590d\u6742\u64cd\u4f5c\uff0c\u56e0\u6b64\u4e0d\u80fd\u628a\u8fd9\u91cc\u7684\u624b\u7b97\u65b9\u6cd5\u4e0d\u52a0\u533a\u5206\u5730\u5957\u5230\u4efb\u4f55\u6bd4\u5bf9\u8bb0\u5f55\u4e0a\u3002<\/p>\n
\u56db\u3001\u5148\u6309\u5177\u4f53\u8bfb\u6bb5\u6838\u9a8c\uff0c\u518d\u770b\u5206\u7c7b\u767e\u5206\u6bd4<\/h2>\n
\u57fa\u7840\u8bbe\u7f6e\u4e0b\uff0c\u5341\u4e8c\u5bf9\u8f93\u5165\u7684\u5206\u7c7b\u5982\u4e0b\u3002\u8fd9\u4e9b\u6570\u91cf\u6765\u81ea\u5b9e\u9645\u8f93\u51fa\u6587\u4ef6\u548c\u7edf\u8ba1\u6587\u4ef6\u7684\u4ea4\u53c9\u6838\u5bf9\uff0c\u6bcf\u4e00\u5bf9\u90fd\u80fd\u8ffd\u6eaf\u5230\u6211\u4eec\u7f16\u5199\u7684\u8f93\u5165\u8bb0\u5f55\u3002<\/p>\n
\n\n\n\n\n\n\n\n\n\n\n
\u8f93\u51fa\u7c7b\u522b<\/th>\n\u672c\u6b21\u6570\u91cf<\/th>\n\u6838\u9a8c\u8981\u70b9<\/th>\n<\/tr>\n<\/thead>\n
\u6709\u6548\u63a5\u89e6<\/td>\n4<\/td>\n\u5176\u4e2d\u542b\u4e00\u5bf9\u7cbe\u786e\u91cd\u590d\u548c\u4e00\u5bf9\u4f4e\u8d28\u91cf\u5bf9\u7167<\/td>\n<\/tr>\n
\u60ac\u5782\u672b\u7aef<\/td>\n2<\/td>\n\u542b\u8de8\u8fb9\u754c\u4f46\u6309\u4e2d\u70b9\u843d\u5728\u540c\u7247\u6bb5\u7684\u4f8b\u5b50<\/td>\n<\/tr>\n
\u518d\u8fde\u63a5<\/td>\n2<\/td>\n\u4e24\u5bf9\u76f8\u90bb\u7247\u6bb5\uff0c\u65b9\u5411\u4e0d\u540c<\/td>\n<\/tr>\n
\u81ea\u73af<\/td>\n1<\/td>\n\u540c\u7247\u6bb5\u5411\u5916\u6392\u5217<\/td>\n<\/tr>\n
\u4e22\u5f03<\/td>\n3<\/td>\n\u540c\u5411\u540c\u7247\u6bb5\u3001\u5168\u672a\u6bd4\u5bf9\u53ca\u4e0b\u6587\u7684\u7248\u672c\u5bf9\u7167<\/td>\n<\/tr>\n
\u989d\u5916\u6761\u4ef6\u8fc7\u6ee4<\/td>\n0<\/td>\n\u57fa\u7840\u8bbe\u7f6e\u672a\u589e\u52a0\u8ddd\u79bb\u548c\u957f\u5ea6\u95e8\u69db<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n
\u6700\u5bb9\u6613\u88ab\u793a\u610f\u56fe\u8bef\u5bfc\u7684\u662f\u518d\u8fde\u63a5\u7c7b\u522b\u3002\u672c\u6b21\u7248\u672c\u5bf9\u76f8\u90bb\u7247\u6bb5\u4f5c\u5224\u65ad\u65f6\uff0c\u6ca1\u6709\u518d\u8981\u6c42\u4e24\u7aef\u5fc5\u987b\u5448\u73b0\u67d0\u4e2a\u7279\u5b9a\u65b9\u5411\u3002\u56e0\u6b64\uff0c\u6211\u4eec\u7f16\u5199\u7684\u76f8\u90bb\u7247\u6bb5\u5411\u5185\u6392\u5217\u548c\u540c\u5411\u6392\u5217\uff0c\u90fd\u8fdb\u5165\u518d\u8fde\u63a5\u7c7b\u522b\u3002\u5206\u6790\u65f6\u5e94\u4ee5\u6240\u8fd0\u884c\u7248\u672c\u7684\u5b9e\u9645\u89c4\u5219\u4e3a\u51c6\uff0c\u4e0d\u8981\u628a\u4e00\u5f20\u6559\u6750\u793a\u610f\u56fe\u5f53\u4f5c\u4ee3\u7801\u4e2d\u7684\u5168\u90e8\u6761\u4ef6\u3002<\/p>\n
\u53e6\u4e00\u5bf9\u6545\u610f\u8bbe\u7f6e\u4e3a\u4f4e\u6bd4\u5bf9\u8d28\u91cf\u7684\u8bb0\u5f55\u4ecd\u8fdb\u5165\u6709\u6548\u63a5\u89e6\u3002\u8fd9\u91cc\u76f4\u63a5\u8c03\u7528\u7684\u662f\u7247\u6bb5\u5206\u7c7b\u811a\u672c\uff0c\u5e76\u6ca1\u6709\u7ecf\u8fc7\u5b8c\u6574\u6d41\u7a0b\u524d\u9762\u7684\u8d28\u91cf\u7b5b\u9009\u3002\u8fd9\u4e0d\u8868\u793a\u5b8c\u6574 HiC-Pro \u6d41\u7a0b\u6ca1\u6709\u8d28\u91cf\u63a7\u5236\uff0c\u800c\u662f\u8bf4\u660e\u5355\u72ec\u8c03\u7528\u67d0\u4e2a\u6a21\u5757\u65f6\uff0c\u5fc5\u987b\u81ea\u5df1\u4fdd\u8bc1\u5b83\u6240\u4f9d\u8d56\u7684\u4e0a\u6e38\u6761\u4ef6\u3002\u628a\u6a21\u5757\u7ed3\u679c\u5199\u6210\u5168\u6d41\u7a0b\u7ed3\u679c\uff0c\u4f1a\u63a9\u76d6\u8fd9\u4e2a\u5173\u952e\u524d\u63d0\u3002<\/p>\n
\u4e94\u3001\u4e00\u4e2a\u503c\u5f97\u4fdd\u7559\u7684\u7248\u672c\u56de\u5f52\u4f8b\u5b50<\/h2>\n
\u5b9e\u8dd1\u8fd8\u53d1\u73b0\u4e86\u4e00\u4e2a\u6bd4\u9884\u671f\u66f4\u7ec6\u7684\u8fb9\u754c\u60c5\u51b5\u3002\u6211\u4eec\u628a\u4e24\u4e2a\u8bfb\u6bb5\u5206\u522b\u653e\u5728\u4e0d\u540c\u67d3\u8272\u4f53\u4e0a\uff0c\u4f46\u8ba9\u5b83\u4eec\u6240\u5c5e\u7247\u6bb5\u5177\u6709\u5b8c\u5168\u76f8\u540c\u7684\u8d77\u6b62\u5750\u6807\u3002\u6309\u751f\u7269\u5b66\u542b\u4e49\uff0c\u8fd9\u4e0d\u662f\u540c\u4e00\u4e2a\u7247\u6bb5\u3002\u7136\u800c\u5728\u672c\u6b21\u5b89\u88c5\u7684\u533a\u95f4\u5bf9\u8c61\u5b9e\u73b0\u4e2d\uff0c\u4e24\u4e2a\u5bf9\u8c61\u7684\u76f8\u7b49\u6bd4\u8f83\u8fd4\u56de\u771f\uff0c\u7247\u6bb5\u540d\u79f0\u4e0d\u540c\u4e5f\u6ca1\u6709\u6539\u53d8\u8fd9\u4e2a\u7ed3\u679c\u3002<\/p>\n
\u968f\u540e\u5206\u7c7b\u7a0b\u5e8f\u5148\u8fdb\u5165\u201c\u540c\u7247\u6bb5\u201d\u7684\u5224\u65ad\u5206\u652f\u3002\u56e0\u4e3a\u8fd9\u5bf9\u8bfb\u6bb5\u540c\u5411\uff0c\u6700\u7ec8\u843d\u5165\u4e22\u5f03\u7c7b\u522b\u3002\u4f5c\u4e3a\u5bf9\u7167\uff0c\u4ecd\u7136\u4f7f\u7528\u4e0d\u540c\u67d3\u8272\u4f53\uff0c\u53ea\u628a\u7b2c\u4e8c\u7aef\u79fb\u5230\u8d77\u6b62\u5750\u6807\u4e0d\u540c\u7684\u7247\u6bb5\uff0c\u540c\u5411\u63a5\u89e6\u5c31\u6b63\u5e38\u8fdb\u5165\u6709\u6548\u7c7b\u522b\u3002\u6700\u5c0f\u5bf9\u8c61\u6bd4\u8f83\u548c\u5b8c\u6574\u5206\u7c7b\u7ed3\u679c\u5747\u4fdd\u5b58\u5728\u590d\u73b0\u8f93\u51fa\u4e2d\u3002<\/p>\n
\u8fd9\u4e2a\u95ee\u9898\u7684\u8303\u56f4\u5fc5\u987b\u8bf4\u51c6\u786e\uff0c\u5b83\u53d1\u751f\u5728\u672c\u6587\u56fa\u5b9a\u7684 HiC-Pro 3.0.0 \u4e0e bx-python 0.8.8 \u7ec4\u5408\u3001\u7279\u5b9a\u7247\u6bb5\u5750\u6807\u6761\u4ef6\u4e0b\u3002\u672c\u6587\u6ca1\u6709\u6d4b\u91cf\u5b83\u5728\u771f\u5b9e\u57fa\u56e0\u7ec4\u4e2d\u7684\u53d1\u751f\u6bd4\u4f8b\uff0c\u4e5f\u6ca1\u6709\u9a8c\u8bc1\u6240\u6709\u5176\u4ed6\u7248\u672c\uff0c\u4e0d\u80fd\u636e\u6b64\u63a8\u65ad\u771f\u5b9e\u9879\u76ee\u635f\u5931\u4e86\u591a\u5c11\u63a5\u89e6\u3002\u76f8\u5173\u5206\u7c7b\u903b\u8f91\u53ef\u5bf9\u7167\u9879\u76ee\u6e90\u4ee3\u7801<\/a>\uff0c\u8fd0\u884c\u7ed3\u8bba\u5219\u4ee5\u590d\u73b0\u5305\u4e2d\u7684\u56fa\u5b9a\u73af\u5883\u4e3a\u51c6\u3002<\/p>\n
\u5b9e\u9645\u9879\u76ee\u5982\u679c\u590d\u7528\u4e86\u540c\u4e00\u73af\u5883\uff0c\u53ef\u4ee5\u628a\u8fd9\u4e2a\u4eba\u5de5\u4f8b\u5b50\u4f5c\u4e3a\u5347\u7ea7\u524d\u540e\u7684\u56de\u5f52\u68c0\u67e5\u3002\u4e0d\u8981\u901a\u8fc7\u4fee\u6539\u771f\u5b9e\u7247\u6bb5\u5750\u6807\u6765\u201c\u7ed5\u5f00\u201d\u95ee\u9898\uff0c\u90a3\u4f1a\u6539\u53d8\u6570\u636e\u672c\u8eab\u3002\u5e94\u6838\u5b9e\u76ee\u6807\u7248\u672c\u7684\u4ee3\u7801\u4e0e\u4f9d\u8d56\u884c\u4e3a\uff0c\u91cd\u65b0\u6bd4\u8f83\u5206\u7c7b\u7ed3\u679c\uff0c\u5e76\u4fdd\u7559\u7248\u672c\u53d8\u66f4\u8bb0\u5f55\u3002\u672c\u6587\u4e5f\u6ca1\u6709\u5077\u5077\u4fee\u6539\u8f6f\u4ef6\u540e\u518d\u628a\u8f93\u51fa\u79f0\u4e3a\u5b98\u65b9\u539f\u59cb\u884c\u4e3a\u3002<\/p>\n
\u516d\u3001\u4e0d\u540c\u8fc7\u6ee4\u6761\u4ef6\uff0c\u6539\u53d8\u7684\u662f\u4e0d\u540c\u5206\u6bcd<\/h2>\n
\u52a0\u5165\u6700\u5c0f\u67d3\u8272\u4f53\u5185\u8ddd\u79bb\u4e09\u5343\u78b1\u57fa\u7684\u6761\u4ef6\u540e\uff0c\u6709\u6548\u63a5\u89e6\u4ece\u56db\u5bf9\u53d8\u6210\u4e00\u5bf9\uff0c\u4e09\u5bf9\u67d3\u8272\u4f53\u5185\u6709\u6548\u63a5\u89e6\u8f6c\u5165\u989d\u5916\u8fc7\u6ee4\u7c7b\u522b\uff0c\u67d3\u8272\u4f53\u95f4\u90a3\u4e00\u5bf9\u4fdd\u7559\u3002\u60ac\u5782\u672b\u7aef\u3001\u81ea\u73af\u548c\u518d\u8fde\u63a5\u6570\u91cf\u4fdd\u6301\u539f\u503c\u3002\u8fd9\u8bf4\u660e\u8be5\u8ddd\u79bb\u6761\u4ef6\u662f\u5728\u7279\u5b9a\u7c7b\u522b\u4e0a\u751f\u6548\uff0c\u5e76\u4e0d\u662f\u628a\u6240\u6709\u8fd1\u8ddd\u79bb\u8bfb\u6bb5\u7edf\u4e00\u91cd\u65b0\u5f52\u7c7b\u3002<\/p>\n
python \/HiC-Pro_3.0.0\/scripts\/mapped_2hic_fragments.py \\\r\n  -f fragments.bed -r toy.bam -o mincis3000 \\\r\n  -a -d 3000\r\n<\/code><\/pre>\n
\u518d\u628a\u6700\u5c0f\u9650\u5236\u6027\u7247\u6bb5\u957f\u5ea6\u8bbe\u4e3a\u4e00\u5343\u96f6\u4e00\uff0c\u4e5d\u4e2a\u4e00\u5343\u78b1\u57fa\u7247\u6bb5\u5168\u90e8\u4e0d\u5408\u683c\u3002\u6b64\u65f6\u5341\u4e00\u5bf9\u6709\u6bd4\u5bf9\u7684\u8bb0\u5f55\u8fdb\u5165\u8fc7\u6ee4\u7c7b\u522b\uff0c\u4e00\u5bf9\u5b8c\u5168\u672a\u6bd4\u5bf9\u8bb0\u5f55\u4ecd\u88ab\u4e22\u5f03\uff0c\u539f\u6765\u90a3\u4e9b\u4ea7\u7269\u5206\u7c7b\u8ba1\u6570\u90fd\u53d8\u4e3a\u96f6\u3002\u82e5\u4e0d\u770b\u89c4\u5219\uff0c\u53ea\u6bd4\u8f83\u81ea\u73af\u6bd4\u4f8b\uff0c\u4f1a\u9519\u8bef\u5730\u8ba4\u4e3a\u6837\u672c\u7684\u81ea\u73af\u95ee\u9898\u6d88\u5931\u4e86\u3002<\/p>\n
\u56e0\u6b64\u6bd4\u8f83\u4e0d\u540c\u8fd0\u884c\u7684\u8d28\u91cf\u7edf\u8ba1\uff0c\u5fc5\u987b\u5148\u6838\u5bf9\u7b5b\u9009\u987a\u5e8f\u548c\u7edf\u8ba1\u5206\u6bcd\u3002\u67d0\u7c7b\u6570\u91cf\u4e0b\u964d\uff0c\u53ef\u80fd\u662f\u5176\u539f\u59cb\u8bb0\u5f55\u5148\u88ab\u53e6\u4e00\u6761\u89c4\u5219\u622a\u8d70\uff0c\u800c\u4e0d\u662f\u5b9e\u9a8c\u6539\u8fdb\u3002\u6b63\u5f0f\u62a5\u544a\u6700\u597d\u540c\u65f6\u4fdd\u7559\u8fdb\u5165\u5206\u7c7b\u7684\u603b\u5bf9\u6570\u3001\u6bcf\u7c7b\u7edd\u5bf9\u6570\u91cf\u53ca\u8fc7\u6ee4\u540e\u603b\u91cf\uff0c\u8ba9\u8bfb\u8005\u80fd\u591f\u91cd\u65b0\u8ba1\u7b97\u6bd4\u4f8b\u3002<\/p>\n
\u63d2\u5165\u7247\u6bb5\u957f\u5ea6\u548c\u4e24\u7aef\u57fa\u56e0\u7ec4\u8ddd\u79bb\u4e5f\u5e94\u5206\u522b\u7406\u89e3\u3002\u6709\u6548\u8fde\u63a5\u7684\u957f\u5ea6\u4f30\u8ba1\u5229\u7528\u4e24\u7aef\u4e0e\u6240\u5c5e\u9176\u5207\u7247\u6bb5\u8fb9\u754c\u7684\u5173\u7cfb\uff0c\u4e0d\u662f\u7b80\u5355\u5730\u62ff\u4e24\u7aef\u5750\u6807\u76f8\u51cf\u3002\u672c\u6587\u6ca1\u6709\u626b\u63cf\u63d2\u5165\u957f\u5ea6\u95e8\u69db\uff0c\u8bfb\u8005\u5982\u9700\u8c03\u6574\uff0c\u5e94\u5148\u62bd\u53d6\u5177\u4f53\u8bb0\u5f55\u624b\u7b97\u5176\u957f\u5ea6\u6765\u6e90\uff0c\u518d\u51b3\u5b9a\u9608\u503c\u3002<\/p>\n
\u4e03\u3001\u6709\u6548\u63a5\u89e6\u3001\u53bb\u91cd\u540e\u63a5\u89e6\u548c\u77e9\u9635\u50cf\u7d20\u4e0d\u662f\u540c\u4e00\u4e2a\u6570\u91cf<\/h2>\n
\u57fa\u7840\u5206\u7c7b\u8f93\u51fa\u56db\u5bf9\u6709\u6548\u63a5\u89e6\u3002\u6267\u884c\u5b9e\u9645\u7684\u5408\u5e76\u811a\u672c\u65f6\uff0c\u5173\u95ed\u53bb\u91cd\u4ecd\u4e3a\u56db\u5bf9\uff0c\u5f00\u542f\u53bb\u91cd\u53d8\u4e3a\u4e09\u5bf9\uff0c\u5220\u9664\u7684\u662f\u6211\u4eec\u7279\u610f\u590d\u5236\u7684\u4e00\u5bf9\u3002\u8fd9\u4e2a\u9636\u6bb5\u7684\u7edf\u8ba1\u6587\u4ef6\u540c\u65f6\u8bb0\u5f55\u5408\u5e76\u524d\u4e0e\u53bb\u91cd\u540e\u7684\u6570\u91cf\uff0c\u56e0\u6b64\u53ef\u4ee5\u6838\u5bf9\u6570\u91cf\u5b88\u6052\uff0c\u800c\u4e0d\u662f\u53ea\u770b\u6700\u7ec8\u6587\u4ef6\u662f\u5426\u5b58\u5728\u3002<\/p>\n
\u5408\u5e76\u811a\u672c\u4f7f\u7528\u5df2\u7ecf\u6392\u5e8f\u7684\u8f93\u5165\u8fdb\u884c\u5f52\u5e76\uff0c\u672c\u6b21\u5148\u6309\u67d3\u8272\u4f53\u53ca\u4f4d\u7f6e\u628a\u6bcf\u4e2a\u8f93\u5165\u6587\u4ef6\u6392\u5e8f\u3002\u82e5\u624b\u52a8\u51c6\u5907\u4e86\u4e2d\u95f4\u63a5\u89e6\u6587\u4ef6\u5374\u9057\u6f0f\u8fd9\u4e00\u6b65\uff0c\u7a0b\u5e8f\u7684\u524d\u63d0\u5c31\u4e0d\u6210\u7acb\u3002\u9010\u5757\u5904\u7406\u518d\u5408\u5e76\u65f6\uff0c\u4e5f\u5e94\u8be5\u786e\u8ba4\u5757\u5185\u6392\u5e8f\u89c4\u5219\u4e00\u81f4\uff0c\u4e0d\u80fd\u8ba4\u4e3a\u62fc\u63a5\u591a\u4e2a\u6587\u4ef6\u5c31\u81ea\u52a8\u5b8c\u6210\u4e86\u5168\u6837\u672c\u53bb\u91cd\u3002<\/p>\n
\u63a5\u7740\u7528\u5b9e\u9645\u77e9\u9635\u6784\u5efa\u7a0b\u5e8f\u751f\u6210\u4e00\u5343\u548c\u4e24\u5343\u78b1\u57fa\u4e24\u79cd\u5206\u8fa8\u7387\u3002\u53bb\u91cd\u540e\u4e00\u5343\u78b1\u57fa\u77e9\u9635\u53ea\u6709\u4e24\u4e2a\u975e\u96f6\u50cf\u7d20\uff0c\u8ba1\u6570\u5206\u522b\u4e3a\u4e8c\u548c\u4e00\uff0c\u603b\u548c\u4e3a\u4e09\u3002\u4e24\u5343\u78b1\u57fa\u77e9\u9635\u4f9d\u7136\u53ea\u6709\u4e24\u4e2a\u975e\u96f6\u50cf\u7d20\uff0c\u603b\u548c\u4ecd\u4e3a\u4e09\uff0c\u4f46\u5206\u7bb1\u7f16\u53f7\u53d1\u751f\u53d8\u5316\u3002<\/p>\n
\/HiC-Pro_3.0.0\/scripts\/build_matrix \\\r\n  --binsize 1000 --chrsizes chrom.sizes \\\r\n  --ifile dedup\/data\/sample\/sample.allValidPairs \\\r\n  --oprefix dedup_1000 --matrix-format upper\r\n<\/code><\/pre>\n
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