{"id":29985,"date":"2024-02-27T17:49:26","date_gmt":"2024-02-27T09:49:26","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=29985"},"modified":"2024-02-27T17:49:28","modified_gmt":"2024-02-27T09:49:28","slug":"%e7%94%a8mega%e6%9e%84%e5%bb%ba%e8%bf%9b%e5%8c%96%e6%a0%91%ef%bc%8c%e4%b8%8d%e4%bc%9a%e8%bf%98%e6%9c%89%e4%ba%ba%e4%b8%8d%e4%bc%9a%e5%90%a7%ef%bc%81%ef%bc%88%e4%ba%8c%ef%bc%89","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=29985","title":{"rendered":"\u7528MEGA\u6784\u5efa\u8fdb\u5316\u6811\uff0c\u4e0d\u4f1a\u8fd8\u6709\u4eba\u4e0d\u4f1a\u5427\uff01\uff08\u4e8c\uff09"},"content":{"rendered":"

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\u4e0a\u6b21\u5c0f\u679c\u5e26\u5927\u5bb6\u5728\u6570\u636e\u5e93\u4e0b\u8f7d\u4e86fasta\u5e8f\u5217\u5e76\u5c06\u5176\u5bfc\u5165MEGA\u4e2d\u8fdb\u884c\u5e8f\u5217\u6bd4\u5bf9\uff0c\u7ed3\u679c\u8f93\u51fa\u540e\u4fdd\u5b58\u4e86mas\u6587\u4ef6\uff0c\u672c\u671f\u6211\u4eec\u63a5\u4e0a\u671f\u7ee7\u7eed\uff1a<\/p>\n

3.\u7b5b\u9009\u6a21\u578b\u3002<\/p>\n

\u53cc\u51fb\u4fdd\u5b58\u7684mas\u6587\u4ef6\uff0c\u70b9\u51fbData\u27a1Phylogenetic Analysi<\/p>\n

<\/p>\n

\u56de\u5230\u4e3b\u754c\u9762\u27a1\u70b9\u51fbMODELS\u27a1Find Best DNA\/Protein Models\uff08ML\uff09\u2026<\/p>\n

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<\/p>\n

\u8fd9\u4e00\u6b65\u662f\u4e3a\u4e86\u5bfb\u627e\u7528\u6765\u6784\u5efa\u8fdb\u5316\u6811\u6700\u5408\u9002\u7684\u6a21\u578b\uff0c\u9ed8\u8ba4\u53c2\u6570\u5373\u53ef\u3002<\/p>\n

<\/p>\n

\u7ed3\u675f\u540e\u4f1a\u5f39\u51fa\u4e00\u4e2a\u754c\u9762\uff0c\u5728BIC\u8fd9\u4e00\u5217\u4e2d\u7ed9\u51fa\u4e86\u6a21\u578b\u5f97\u5206\uff0c\u8d8a\u9760\u524d\u7684\u8d8a\u597d\uff0c\u7b2c\u4e00\u4e2a\u662fK2+G\uff0c\u4f46\u662f\u8f6f\u4ef6\u4e0d\u652f\u6301\u7ec4\u5408\u6a21\u578b\uff0c\u6240\u4ee5\u9009\u62e9\u6392\u540d\u6700\u9760\u524d\u7684\u5355\u4e2a\u6a21\u578b\u5373\u53ef\uff0c\u8fd9\u91cc\u5c0f\u679c\u9009\u62e9\u4e86K2.<\/p>\n

4.\u6784\u5efa\u8fdb\u5316\u6811<\/p>\n

<\/p>\n

\u5728\u4e3b\u754c\u9762\u70b9\u51fbPHYLOGENY\uff08\u6811\u72b6\u56fe\u6807\uff09\u27a1\u9009\u7b2c\u4e8c\u4e2aNJ\u90bb\u63a5\u6cd5\u5efa\u6811<\/p>\n

*\u6700\u5927\u4f3c\u7136\u6cd5 (Maximum Likelihood) \u548c\u90bb\u63a5\u6cd5 (Neighbor-Joining) \u662f\u4e24\u79cd\u5e38\u89c1\u7684\u5efa\u6811\u65b9\u6cd5\u4e24\u79cd\u65b9\u6cd5\u4e4b\u95f4\u7684\u4e3b\u8981\u533a\u522b\u5728\u4e8e\uff0c\u6700\u5927\u4f3c\u7136\u6cd5\u9700\u8981\u8ba1\u7b97\u6240\u6709\u53ef\u80fd\u7684\u6811\u5f62\u72b6\uff0c\u56e0\u6b64\u5bf9\u4e8e\u5927\u578b\u6570\u636e\u96c6\u6765\u8bf4\u8ba1\u7b97\u91cf\u5f88\u5927\uff0c\u5e76\u4e14\u53ef\u80fd\u4f1a\u53d7\u5230\u8ba1\u7b97\u8d44\u6e90\u7684\u9650\u5236\u3002\u800c\u90bb\u63a5\u6cd5\u5219\u662f\u4e00\u79cd\u542f\u53d1\u5f0f\u65b9\u6cd5\uff0c\u80fd\u591f\u5904\u7406\u66f4\u5927\u7684\u6570\u636e\u96c6\uff0c\u4f46\u5b83\u6ca1\u6709\u8003\u8651\u6240\u6709\u53ef\u80fd\u7684\u6811\u5f62\u72b6\uff0c\u53ef\u80fd\u4f1a\u5f97\u5230\u4e0d\u540c\u7684\u6811\u5f62\u72b6\uff0c\u53d6\u51b3\u4e8e\u5176\u542f\u53d1\u5f0f\u7b97\u6cd5\u7684\u9009\u62e9\u548c\u7279\u5b9a\u6570\u636e\u96c6\u7684\u5c5e\u6027\u3002\u603b\u7684\u6765\u8bf4\uff0c\u6700\u5927\u4f3c\u7136\u6cd5\u5bf9\u4e8e\u5c0f\u578b\u548c\u4e2d\u578b\u6570\u636e\u96c6\u662f\u4e00\u4e2a\u66f4\u51c6\u786e\u7684\u65b9\u6cd5\uff0c\u800c\u90bb\u63a5\u6cd5\u5219\u5219\u9002\u7528\u4e8e\u66f4\u5927\u7684\u6570\u636e\u96c6\u3002\u5f53\u7136\uff0c\u4f60\u53ef\u4ee5\u6839\u636e\u81ea\u5df1\u7684\u504f\u597d\u548c\u5206\u6790\u76ee\u7684\u9009\u62e9\u5efa\u6811\u65b9\u6cd5\u3002 <\/p>\n

\u5728Test of Phylogeny\u4e2d\u9009\u62e9bootstrap\uff08bootstrap\u662f\u4e00\u79cd\u5e38\u7528\u7684\u91cd\u590d\u62bd\u6837\u65b9\u6cd5\uff0c\u7528\u4e8e\u8bc4\u4f30\u6784\u5efa\u7684\u8fdb\u5316\u6811\u7684\u53ef\u9760\u6027\u548c\u7edf\u8ba1\u663e\u8457\u6027\uff09\u6211\u4eec\u5728\u6b65\u957f\u68c0\u9a8c\u6b21\u6570\u9009\u62e91000\u6b21\uff08\u9ed8\u8ba4500\uff09\u3002<\/p>\n

Model\u9009\u62e9\u7b5b\u9009\u51fa\u7684\u6a21\u578b\u5373\u53ef\uff0c\u8fd9\u91cc\u7528\u5230\u521a\u521a\u9009\u62e9\u7684K2<\/p>\n

\u5728Gaps\/MissingData Treatment\u5904\u9009\u62e9Partial deletion\uff0cSite CoverageCutoff\u9009\u62e950\u3002<\/p>\n

*\u5728\u5206\u5b50\u5e8f\u5217\u4e2d\u5b58\u5728\u4e00\u4e9b\u7f3a\u5931\u7684\u6570\u636e\u70b9\u6216\u7a7a\u7f3a\u7684\u4f4d\u7f6e\u3002\u8fd9\u79cd\u7f3a\u5931\u6570\u636e\u53ef\u80fd\u4f1a\u5bf9\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u7ed3\u679c\u4ea7\u751f\u5f71\u54cd\uff0c\u56e0\u6b64\u9700\u8981\u5bf9\u7f3a\u5931\u6570\u636e\u8fdb\u884c\u5904\u7406\u3002Partial deletion\u662f\u5176\u4e2d\u4e00\u79cd\u65b9\u6cd5\uff0c\u5b83\u5c06\u542b\u6709\u7f3a\u5931\u6570\u636e\u7684\u5e8f\u5217\u5220\u9664\uff0c\u4f46\u4fdd\u7559\u5728\u5176\u5b83\u5e8f\u5217\u4e2d\u5b8c\u6574\u7684\u6570\u636e\u70b9\u3002Site Coverage Cutoff\u662f\u6307\u5728Partial deletion\u65b9\u6cd5\u4e2d\uff0c\u5141\u8bb8\u4fdd\u7559\u7684\u6570\u636e\u70b9\u7684\u6700\u5c0f\u6bd4\u4f8b\u6216\u9608\u503c\u3002\u4f8b\u5982\uff0c\u9009\u62e950\u8868\u793a\u53ea\u6709\u5728\u67d0\u4e2a\u6570\u636e\u70b9\u4e0a\u7684\u6570\u636e\u5728\u81f3\u5c1150%\u7684\u6837\u672c\u4e2d\u90fd\u6709\u89c2\u6d4b\u503c\u65f6\uff0c\u624d\u4f1a\u5c06\u8be5\u6570\u636e\u70b9\u7eb3\u5165\u5206\u6790\u3002\u8fd9\u4e2a\u9608\u503c\u7684\u9009\u62e9\u4f1a\u5f71\u54cd\u7ed3\u679c\u7684\u53ef\u9760\u6027\u548c\u51c6\u786e\u6027\uff0c\u8f83\u4f4e\u7684\u9608\u503c\u53ef\u80fd\u4f1a\u5bfc\u81f4\u8f83\u591a\u7684\u566a\u97f3\u548c\u504f\u5dee\uff0c\u8f83\u9ad8\u7684\u9608\u503c\u53ef\u80fd\u4f1a\u524a\u51cf\u6389\u592a\u591a\u7684\u6570\u636e\u70b9\uff0c\u53ef\u80fd\u4f1a\u5f71\u54cd\u7ed3\u679c\u7684\u7cbe\u5ea6\u548c\u6709\u6548\u6027\u3002<\/p>\n

\u70b9\u51fbOK\uff0c\u7a0d\u7b49\u7247\u523b\u6811\u5c31\u753b\u597d\u4e86\u3002<\/p>\n

<\/p>\n

MEGA\u53ef\u4ee5\u5bf9\u8fdb\u5316\u6811\u8fdb\u884c\u53ef\u89c6\u5316\u548c\u7f16\u8f91\u3002\u53ef\u4ee5\u6dfb\u52a0\u6807\u7b7e\u3001\u6539\u53d8\u989c\u8272\u548c\u6837\u5f0f\u7b49\u3002\u6700\u7ec8\u7684\u8fdb\u5316\u6811\u53ef\u4ee5\u5bfc\u51fa\u4e3a\u591a\u79cd\u683c\u5f0f\uff0c\u5982PDF\u3001PNG\u3001SVG\u7b49\u3002<\/p>\n

\u4ee5\u4e0a\u5c31\u662f\u57fa\u4e8eMEGA\u8f6f\u4ef6\u6784\u5efa\u8fdb\u5316\u6811\u7684\u8be6\u7ec6\u6b65\u9aa4\uff0c\u600e\u4e48\u6837\uff0c\u662f\u4e0d\u662f\u5f88\u7b80\u5355\u5462\uff1f<\/p>\n

\u540e\u8bb0\uff1a<\/p>\n

\u5982\u679c\u6709\u7ed8\u5236\u8fdb\u5316\u6811\u7684\u9700\u6c42\uff0c\u5c0f\u679c\u5f3a\u70c8\u5b89\u5229\u672c\u516c\u53f8\u7684\u4e91\u751f\u4fe1\u5e73\u53f0\uff0c\u6253\u5f00\u94fe\u63a5\uff0c\u5728\u4e91\u751f\u4fe1\u00b7\u8fce\u65b0\u6625\u4e00\u680f\u627e\u5230\u201c\u8fdb\u5316\u6811\u201d\uff0c\u52a8\u52a8\u624b\u6307\u76f4\u63a5\u4e0a\u4f20\u81ea\u5df1\u7684\u6570\u636e\u5c31\u51fa\u56fe\u5566\uff01\u4e0b\u56fe\u662f\u7528\u5e73\u53f0\u793a\u4f8b\u6570\u636e\u505a\u7684\u56fe\u54df~<\/p>\n

<\/p>\n

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\u5e73\u53f0\u94fe\u63a5\uff1a\u4e91\u751f\u4fe1 \u00a0– \u5b66\u751f\u7269\u4fe1\u606f\u5b66 (biocloudservice.com)<\/a><\/p>\n

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