{"id":2970,"date":"2026-03-02T23:52:02","date_gmt":"2026-03-02T15:52:02","guid":{"rendered":"http:\/\/www.majunpeng.com\/?p=2970"},"modified":"2026-03-03T22:55:58","modified_gmt":"2026-03-03T14:55:58","slug":"phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96","status":"publish","type":"post","link":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/","title":{"rendered":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316"},"content":{"rendered":"\t\t<div data-elementor-type=\"wp-post\" data-elementor-id=\"2970\" class=\"elementor elementor-2970\" data-elementor-post-type=\"post\">\n\t\t\t\t<div class=\"elementor-element elementor-element-619ac04 e-flex e-con-boxed e-con e-parent\" data-id=\"619ac04\" data-element_type=\"container\" data-e-type=\"container\">\n\t\t\t\t\t<div class=\"e-con-inner\">\n\t\t\t\t<div class=\"elementor-element elementor-element-a72dea0 elementor-widget elementor-widget-heading\" data-id=\"a72dea0\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h2 class=\"elementor-heading-title elementor-size-default\">\u5f15\u8a00<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-dc7f8e4 elementor-widget elementor-widget-text-editor\" data-id=\"dc7f8e4\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p data-start=\"0\" data-end=\"185\">\u4f20\u7edf\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u901a\u5e38\u4ee5\u5206\u53c9\u5f0f\u7cfb\u7edf\u53d1\u80b2\u6811\u4e3a\u6846\u67b6\uff0c\u5047\u8bbe\u7269\u79cd\u6f14\u5316\u4ec5\u901a\u8fc7\u8c31\u7cfb\u5206\u5316\u5b8c\u6210\u3002\u7136\u800c\uff0c\u5728\u771f\u5b9e\u7684\u8fdb\u5316\u8fc7\u7a0b\u4e2d\uff0c\u6742\u4ea4\uff08hybridization\uff09\u3001\u57fa\u56e0\u6e17\u5165\uff08introgression\uff09\u3001\u6c34\u5e73\u57fa\u56e0\u8f6c\u79fb\u4ee5\u53ca\u4e0d\u5b8c\u5168\u8c31\u7cfb\u5206\u9009\uff08ILS\uff09\u7b49\u8fc7\u7a0b\u666e\u904d\u5b58\u5728\uff0c\u5c24\u5176\u5728\u690d\u7269\u591a\u500d\u5316\u7c7b\u7fa4\u548c\u5feb\u901f\u8f90\u5c04\u5206\u5316\u7684\u8c31\u7cfb\u4e2d\u66f4\u4e3a\u5e38\u89c1\u3002\u8fd9\u4e9b\u8fc7\u7a0b\u4f1a\u5bfc\u81f4\u4e0d\u540c\u57fa\u56e0\u6811\u4e4b\u95f4\u51fa\u73b0\u663e\u8457\u51b2\u7a81\uff0c\u4f7f\u5355\u4e00\u7269\u79cd\u6811\u96be\u4ee5\u5b8c\u6574\u523b\u753b\u771f\u5b9e\u7684\u6f14\u5316\u5386\u53f2\u3002<\/p><p data-start=\"187\" data-end=\"349\">\u4e3a\u4e86\u89e3\u6790\u8fd9\u79cd\u590d\u6742\u7684\u201c\u7f51\u72b6\u8fdb\u5316\u201d\u6a21\u5f0f\uff0c<span class=\"hover:entity-accent entity-underline inline cursor-pointer align-baseline\"><span class=\"whitespace-normal\">PhyloNetworks<\/span><\/span> \u63d0\u4f9b\u4e86\u57fa\u4e8e\u591a\u57fa\u56e0\u6811\u4fe1\u606f\u63a8\u65ad\u7cfb\u7edf\u53d1\u80b2\u7f51\u7edc\u7684\u7edf\u8ba1\u65b9\u6cd5\u3002\u5176\u6838\u5fc3\u7b97\u6cd5 SNaQ \u5728\u5171\u7956\u6a21\u578b\u6846\u67b6\u4e0b\uff0c\u7ed3\u5408\u4f2a\u4f3c\u7136\u4f30\u8ba1\uff0c\u5728\u8003\u8651 ILS \u7684\u540c\u65f6\u8bc6\u522b\u6f5c\u5728\u7684\u6742\u4ea4\u8282\u70b9\u53ca\u5176\u8d21\u732e\u6bd4\u4f8b\uff0c\u4ece\u800c\u5728\u4f20\u7edf\u7269\u79cd\u6811\u4e4b\u5916\u6784\u5efa\u5305\u542b\u6742\u4ea4\u4e8b\u4ef6\u7684\u7cfb\u7edf\u53d1\u80b2\u7f51\u7edc\u3002\u56e0\u6b64\uff0cPhyloNetworks \u4e3a\u89e3\u6790\u591a\u500d\u4f53\u8d77\u6e90\u3001\u8fd1\u7f18\u7269\u79cd\u57fa\u56e0\u6d41\u53ca\u590d\u6742\u6f14\u5316\u5386\u53f2\u63d0\u4f9b\u4e86\u91cd\u8981\u5de5\u5177\uff0c\u4f7f\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4ece\u201c\u6811\u201d\u62d3\u5c55\u81f3\u201c\u7f51\u201d\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-fdf36d6 elementor-widget elementor-widget-heading\" data-id=\"fdf36d6\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h2 class=\"elementor-heading-title elementor-size-default\">PhyloNetworks<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-01a7dcb elementor-widget elementor-widget-heading\" data-id=\"01a7dcb\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">\u5b89\u88c5<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-be2a74c elementor-widget elementor-widget-text-editor\" data-id=\"be2a74c\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>PhyloNetworks\u662f\u57fa\u4e8ejulia\u5236\u4f5c\u7684\uff0c\u56e0\u6b64\u5728\u4e0b\u8f7dPhyloNetworks\u4e4b\u524d\uff0c\u8981\u5148\u4e0b\u8f7d\u5e76\u914d\u7f6ejulia<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-974ffc0 elementor-widget elementor-widget-code-highlight\" data-id=\"974ffc0\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-bash line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-bash\">\n\t\t\t\t\t<xmp>curl -fsSL https:\/\/install.julialang.org | sh\n\n# \u8fdb\u5165julia\njulia<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-15e7537 elementor-widget elementor-widget-text-editor\" data-id=\"15e7537\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u8fdb\u5165julia\u540e\uff0c\u4e0b\u8f7dPhyloNetworks\u53ca\u5176\u4f9d\u8d56\u8f6f\u4ef6<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-c7025fa elementor-widget elementor-widget-code-highlight\" data-id=\"c7025fa\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-bash line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-bash\">\n\t\t\t\t\t<xmp>using Pkg # to use functions that manage packages\r\nPkg.add(\"PhyloNetworks\") # to download & install package PhyloNetworks\r\nPkg.add(\"PhyloPlots\")\r\nPkg.add(\"RCall\")      # packaage to call R from within julia<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-e263ebd elementor-widget elementor-widget-text-editor\" data-id=\"e263ebd\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u7531\u4e8ePhyloNetworks\u6700\u65b0\u7248\u672c\u7684\u4e00\u4e9b\u547d\u4ee4\u53d1\u751f\u4e86\u53d8\u5316\uff0c\u6240\u4ee5\u8fd9\u91cc\u6307\u5b9a\u4e0b\u8f7d0.16.4\u7248\u672c<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-4829d16 elementor-widget elementor-widget-code-highlight\" data-id=\"4829d16\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-bash line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-bash\">\n\t\t\t\t\t<xmp>Pkg.add(Pkg.PackageSpec(;name=\"PhyloNetworks\", version=\"0.16.4\"))<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-0d842e1 elementor-widget elementor-widget-heading\" data-id=\"0d842e1\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">\u51c6\u5907\u8f93\u5165\u6587\u4ef6<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-4d75c6d elementor-widget elementor-widget-text-editor\" data-id=\"4d75c6d\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>PhyloNetworks\u8fdb\u884c\u7f51\u72b6\u8fdb\u5316\u5206\u6790\u7684\u8f93\u5165\u6587\u4ef6\u6709\u4e24\u4e2a\uff081\uff09\u57fa\u56e0\u6811\uff082\uff09\u7269\u79cd\u6811\uff08\u4e32\u8054\u6cd5\u6216\u5e76\u8054\u6cd5\u90fd\u53ef\u4ee5\uff09\uff0c\u9700\u8981\u6ce8\u610f\u7684\u662f\uff0c\u57fa\u56e0\u6811\u548c\u7269\u79cd\u6811\u90fd\u662f\u4e0d\u9700\u8981\u5b9a\u6839\u7684\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-78584e6 elementor-widget elementor-widget-heading\" data-id=\"78584e6\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">\u7f51\u72b6\u8fdb\u5316\u5206\u6790<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-f96baf4 elementor-widget elementor-widget-text-editor\" data-id=\"f96baf4\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u8fd9\u91cc\u6211\u4eec\u901a\u8fc7\u4e00\u4e2ajulia\u811a\u672c\uff0c\u201craxmljulia.jl\u201d\u8fdb\u884c\u7f51\u72b6\u8fdb\u5316\u5206\u6790\u3002\u8fd9\u91cc\u4e00\u5171\u8fd0\u884c5\u6b21\uff0c\u53ea\u6709\u7b2c\u4e00\u6b21\u4f7f\u7528\u7684\u662f\u6211\u4eec\u63d0\u4f9b\u5f97\u7269\u79cd\u6811\uff0c\u540e\u9762\u7684\u6bcf\u4e00\u6b21\u90fd\u662f\u57fa\u4e8e\u4e0a\u4e00\u6b21\u5f97\u7ed3\u679c\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-bdfb1c4 elementor-widget elementor-widget-code-highlight\" data-id=\"bdfb1c4\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-julia line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-julia\">\n\t\t\t\t\t<xmp>using PhyloNetworks\nusing PhyloPlots\n#raxmlCF = readTree2CF(\"Gene_tree.tre\", writeTab=false, writeSummary=false)\ntrees = readMultiTopology(\"Prune_Gene_tree.tre\")\nq,t = countquartetsintrees(trees)\ndf = writeTableCF(q,t)\nraxmlCF = readTableCF(df)\nastraltree = readTopology(\"Species.tre\")\nusing Distributed\naddprocs(30)\n@everywhere using PhyloNetworks\nnet0 = snaq!(astraltree, raxmlCF, hmax=0, filename=\"net0_raxml\", seed=123, runs=50)\nnet1 = snaq!(net0, raxmlCF, hmax=1, filename=\"net1_raxml\", seed=456, runs=50)\nnet2 = snaq!(net1, raxmlCF, hmax=2, filename=\"net2_raxml\", seed=789, runs=50)\nnet3 = snaq!(net2, raxmlCF, hmax=3, filename=\"net3_raxml\", seed=456, runs=50)\nnet4 = snaq!(net3, raxmlCF, hmax=4, filename=\"net4_raxml\", seed=789, runs=50)\n\n# Prune_Gene_tree.tre gene tres\n# Species.tre species tree<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-822828e elementor-widget elementor-widget-text-editor\" data-id=\"822828e\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u8fd0\u884c\u811a\u672c\uff0c\u8fdb\u884c\u7f51\u72b6\u8fdb\u5316\u5206\u6790<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-8b39513 elementor-widget elementor-widget-code-highlight\" data-id=\"8b39513\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-bash line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-bash\">\n\t\t\t\t\t<xmp>julia raxmljulia.jl<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-daae895 elementor-widget elementor-widget-heading\" data-id=\"daae895\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">\u7ed8\u5236\u7f51\u72b6\u8fdb\u5316\u56fe<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-f06aa9c elementor-widget elementor-widget-text-editor\" data-id=\"f06aa9c\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u5148\u7f6e\u6839<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-39614ef elementor-widget elementor-widget-code-highlight\" data-id=\"39614ef\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-julia line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-julia\">\n\t\t\t\t\t<xmp>using PhyloNetworks \r\nusing PhyloPlots \r\nusing RCall\r\nnet0 = readSnaqNetwork(\"net0_raxml.out\")\r\nrootatnode!(net0, \"Campanula_reverchonoii_no_CAM121\") \r\nnet1 = readSnaqNetwork(\"net1_raxml.out\")\r\nrootatnode!(net1, \"Campanula_reverchonoii_no_CAM121\")\r\nnet2 = readSnaqNetwork(\"net2_raxml.out\")\r\nrootatnode!(net2, \"Campanula_reverchonoii_no_CAM121\")\r\nnet3 = readSnaqNetwork(\"net3_raxml.out\")\r\nrootatnode!(net3, \"Campanula_reverchonoii_no_CAM121\")\r\nnet4 = readSnaqNetwork(\"net4_raxml.out\")\r\nrootatnode!(net4, \"Campanula_reverchonoii_no_CAM121\")\r\n<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-a58a656 elementor-widget elementor-widget-text-editor\" data-id=\"a58a656\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u7ed8\u56fe<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-587f321 elementor-widget elementor-widget-code-highlight\" data-id=\"587f321\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-julia line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-julia\">\n\t\t\t\t\t<xmp>R\"pdf\"(\"plot4-net0123.pdf\", width=28, height=12)\r\nplot(net0, :R);\r\nplot(net1, :R, showGamma=true, style=:majortree);\r\nplot(net2, :R, showGamma=true, style=:majortree);\r\nplot(net3, :R, showGamma=true, style=:majortree);\r\nplot(net4, :R, showGamma=true, style=:majortree);\r\nR\"dev.off()\";\r\n<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-b75e8cf elementor-widget elementor-widget-text-editor\" data-id=\"b75e8cf\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u7ed3\u679c\u4e3a\u4e94\u5f20\u56fe\uff0c\u5206\u522b\u5bf9\u5e94\u4e94\u6b21\u5206\u6790\u7684\u7ed3\u679c\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-e79b36f elementor-widget elementor-widget-image\" data-id=\"e79b36f\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img fetchpriority=\"high\" decoding=\"async\" width=\"1024\" height=\"439\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png\" class=\"attachment-large size-large wp-image-2977\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png 1024w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-300x129.png 300w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-768x329.png 768w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1536x658.png 1536w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-2048x877.png 2048w\" sizes=\"(max-width: 1024px) 100vw, 1024px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-31239d1 elementor-widget elementor-widget-image\" data-id=\"31239d1\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img decoding=\"async\" width=\"1024\" height=\"439\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-1024x439.png\" class=\"attachment-large size-large wp-image-2978\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-1024x439.png 1024w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-300x129.png 300w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-768x329.png 768w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-1536x658.png 1536w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_2-2048x877.png 2048w\" sizes=\"(max-width: 1024px) 100vw, 1024px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-ac3a6c2 elementor-widget elementor-widget-image\" data-id=\"ac3a6c2\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img decoding=\"async\" width=\"1024\" height=\"439\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-1024x439.png\" class=\"attachment-large size-large wp-image-2979\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-1024x439.png 1024w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-300x129.png 300w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-768x329.png 768w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-1536x658.png 1536w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_3-2048x877.png 2048w\" sizes=\"(max-width: 1024px) 100vw, 1024px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-aed5077 elementor-widget elementor-widget-image\" data-id=\"aed5077\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"439\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-1024x439.png\" class=\"attachment-large size-large wp-image-2980\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-1024x439.png 1024w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-300x129.png 300w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-768x329.png 768w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-1536x658.png 1536w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_4-2048x877.png 2048w\" sizes=\"(max-width: 1024px) 100vw, 1024px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-a3ba420 elementor-widget elementor-widget-image\" data-id=\"a3ba420\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"439\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-1024x439.png\" class=\"attachment-large size-large wp-image-2981\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-1024x439.png 1024w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-300x129.png 300w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-768x329.png 768w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-1536x658.png 1536w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_5-2048x877.png 2048w\" sizes=\"(max-width: 1024px) 100vw, 1024px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-1667a23 elementor-widget elementor-widget-text-editor\" data-id=\"1667a23\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u8fd8\u53ef\u4ee5\u4f7f\u7528Dendroscope\u8fdb\u884c\u53ef\u89c6\u5316\uff0c\u5c06.out\u6587\u4ef6\u4e2dDendroscope\u540e\u9762\u7684\u6811\u590d\u5236\u7c98\u8d34\u5230\u4e0b\u6846\u4e2d\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-fd01eaa elementor-widget elementor-widget-heading\" data-id=\"fd01eaa\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"heading.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t<h3 class=\"elementor-heading-title elementor-size-default\">\u8bc4\u4f30\u6700\u4f73\u6742\u4ea4\u6b21\u6570<\/h3>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-e00a5ce elementor-widget elementor-widget-code-highlight\" data-id=\"e00a5ce\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"code-highlight.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t<div class=\"prismjs-okaidia copy-to-clipboard \">\n\t\t\t<pre data-line=\"\" class=\"highlight-height language-julia line-numbers\">\n\t\t\t\t<code readonly=\"true\" class=\"language-julia\">\n\t\t\t\t\t<xmp>scores = [net0.loglik, net1.loglik, net2.loglik, net3.loglik, net4.loglik]\r\nR\"pdf\"(\"score-vs-h0-4.pdf\", width=5, height=5);\r\nR\"plot\"(x=0:4, y=scores, type=\"o\", xlab=\"number of hybridizations h\", ylab=\"network score\");\r\nR\"dev.off\"();\r\n<\/xmp>\n\t\t\t\t<\/code>\n\t\t\t<\/pre>\n\t\t<\/div>\n\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-9a034ba elementor-widget elementor-widget-image\" data-id=\"9a034ba\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"image.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<img loading=\"lazy\" decoding=\"async\" width=\"654\" height=\"612\" src=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/ScreenShot_2026-03-03_224630_465.png\" class=\"attachment-large size-large wp-image-2982\" alt=\"\" srcset=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/ScreenShot_2026-03-03_224630_465.png 654w, http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/ScreenShot_2026-03-03_224630_465-300x281.png 300w\" sizes=\"(max-width: 654px) 100vw, 654px\" \/>\t\t\t\t\t\t\t\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<div class=\"elementor-element elementor-element-a03323a elementor-widget elementor-widget-text-editor\" data-id=\"a03323a\" data-element_type=\"widget\" data-e-type=\"widget\" data-widget_type=\"text-editor.default\">\n\t\t\t\t<div class=\"elementor-widget-container\">\n\t\t\t\t\t\t\t\t\t<p>\u6742\u4ea4\u6b21\u6570\u4ece0-1\u53d8\u5316\u5f88\u5927\uff0c\u4f46\u662f\u4ece1-2\u4ee5\u53ca\u540e\u7eed\u5c31\u6ca1\u5565\u53d8\u5316\u4e86\uff0c\u6240\u4ee5\u6700\u4f73\u7684\u6742\u4ea4\u6b21\u6570\u5c31\u662f1\u3002<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"<p>\u5f15\u8a00 \u4f20\u7edf\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u901a\u5e38\u4ee5\u5206\u53c9\u5f0f\u7cfb\u7edf\u53d1\u80b2\u6811\u4e3a\u6846\u67b6\uff0c\u5047\u8bbe\u7269\u79cd\u6f14\u5316\u4ec5\u901a\u8fc7\u8c31\u7cfb\u5206\u5316\u5b8c\u6210\u3002\u7136\u800c\uff0c\u5728\u771f\u5b9e\u7684\u8fdb\u5316\u8fc7\u7a0b\u4e2d\uff0c &#8230; <a title=\"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\" class=\"read-more\" href=\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\" aria-label=\"\u9605\u8bfb PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\">\u9605\u8bfb\u66f4\u591a<\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"_crdt_document":"","footnotes":""},"categories":[12],"tags":[],"class_list":["post-2970","post","type-post","status-publish","format-standard","hentry","category-12"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v23.6 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\/\" \/>\n<meta property=\"og:locale\" content=\"zh_CN\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\" \/>\n<meta property=\"og:description\" content=\"\u5f15\u8a00 \u4f20\u7edf\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u901a\u5e38\u4ee5\u5206\u53c9\u5f0f\u7cfb\u7edf\u53d1\u80b2\u6811\u4e3a\u6846\u67b6\uff0c\u5047\u8bbe\u7269\u79cd\u6f14\u5316\u4ec5\u901a\u8fc7\u8c31\u7cfb\u5206\u5316\u5b8c\u6210\u3002\u7136\u800c\uff0c\u5728\u771f\u5b9e\u7684\u8fdb\u5316\u8fc7\u7a0b\u4e2d\uff0c ... \u9605\u8bfb\u66f4\u591a\" \/>\n<meta property=\"og:url\" content=\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\/\" \/>\n<meta property=\"og:site_name\" content=\"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\" \/>\n<meta property=\"article:published_time\" content=\"2026-03-02T15:52:02+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2026-03-03T14:55:58+00:00\" \/>\n<meta property=\"og:image\" content=\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png\" \/>\n\t<meta property=\"og:image:width\" content=\"2560\" \/>\n\t<meta property=\"og:image:height\" content=\"1097\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"author\" content=\"majunpeng\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"\u4f5c\u8005\" \/>\n\t<meta name=\"twitter:data1\" content=\"majunpeng\" \/>\n\t<meta name=\"twitter:label2\" content=\"\u9884\u8ba1\u9605\u8bfb\u65f6\u95f4\" \/>\n\t<meta name=\"twitter:data2\" content=\"2 \u5206\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#article\",\"isPartOf\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\"},\"author\":{\"name\":\"majunpeng\",\"@id\":\"http:\/\/www.majunpeng.com\/#\/schema\/person\/6391320b50d457bc7b38047f95d65474\"},\"headline\":\"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\",\"datePublished\":\"2026-03-02T15:52:02+00:00\",\"dateModified\":\"2026-03-03T14:55:58+00:00\",\"mainEntityOfPage\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\"},\"wordCount\":25,\"commentCount\":0,\"publisher\":{\"@id\":\"http:\/\/www.majunpeng.com\/#organization\"},\"image\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage\"},\"thumbnailUrl\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png\",\"articleSection\":[\"\u7cfb\u7edf\u53d1\u80b2\"],\"inLanguage\":\"zh-Hans\",\"potentialAction\":[{\"@type\":\"CommentAction\",\"name\":\"Comment\",\"target\":[\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#respond\"]}]},{\"@type\":\"WebPage\",\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\",\"url\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\",\"name\":\"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\",\"isPartOf\":{\"@id\":\"http:\/\/www.majunpeng.com\/#website\"},\"primaryImageOfPage\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage\"},\"image\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage\"},\"thumbnailUrl\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png\",\"datePublished\":\"2026-03-02T15:52:02+00:00\",\"dateModified\":\"2026-03-03T14:55:58+00:00\",\"breadcrumb\":{\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#breadcrumb\"},\"inLanguage\":\"zh-Hans\",\"potentialAction\":[{\"@type\":\"ReadAction\",\"target\":[\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/\"]}]},{\"@type\":\"ImageObject\",\"inLanguage\":\"zh-Hans\",\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage\",\"url\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png\",\"contentUrl\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png\",\"width\":2560,\"height\":1097},{\"@type\":\"BreadcrumbList\",\"@id\":\"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#breadcrumb\",\"itemListElement\":[{\"@type\":\"ListItem\",\"position\":1,\"name\":\"\u9996\u9875\",\"item\":\"http:\/\/www.majunpeng.com\/\"},{\"@type\":\"ListItem\",\"position\":2,\"name\":\"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\"}]},{\"@type\":\"WebSite\",\"@id\":\"http:\/\/www.majunpeng.com\/#website\",\"url\":\"http:\/\/www.majunpeng.com\/\",\"name\":\"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\",\"description\":\"\",\"publisher\":{\"@id\":\"http:\/\/www.majunpeng.com\/#organization\"},\"potentialAction\":[{\"@type\":\"SearchAction\",\"target\":{\"@type\":\"EntryPoint\",\"urlTemplate\":\"http:\/\/www.majunpeng.com\/?s={search_term_string}\"},\"query-input\":{\"@type\":\"PropertyValueSpecification\",\"valueRequired\":true,\"valueName\":\"search_term_string\"}}],\"inLanguage\":\"zh-Hans\"},{\"@type\":\"Organization\",\"@id\":\"http:\/\/www.majunpeng.com\/#organization\",\"name\":\"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\",\"url\":\"http:\/\/www.majunpeng.com\/\",\"logo\":{\"@type\":\"ImageObject\",\"inLanguage\":\"zh-Hans\",\"@id\":\"http:\/\/www.majunpeng.com\/#\/schema\/logo\/image\/\",\"url\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2024\/10\/\u5fae\u4fe1\u56fe\u7247_20241011142506.jpg\",\"contentUrl\":\"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2024\/10\/\u5fae\u4fe1\u56fe\u7247_20241011142506.jpg\",\"width\":338,\"height\":333,\"caption\":\"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0\"},\"image\":{\"@id\":\"http:\/\/www.majunpeng.com\/#\/schema\/logo\/image\/\"}},{\"@type\":\"Person\",\"@id\":\"http:\/\/www.majunpeng.com\/#\/schema\/person\/6391320b50d457bc7b38047f95d65474\",\"name\":\"majunpeng\",\"image\":{\"@type\":\"ImageObject\",\"inLanguage\":\"zh-Hans\",\"@id\":\"http:\/\/www.majunpeng.com\/#\/schema\/person\/image\/\",\"url\":\"https:\/\/secure.gravatar.com\/avatar\/ce816a2eab088d1443102c99c45948bde4a97722f3eaac31524215496138f9cc?s=96&d=mm&r=g\",\"contentUrl\":\"https:\/\/secure.gravatar.com\/avatar\/ce816a2eab088d1443102c99c45948bde4a97722f3eaac31524215496138f9cc?s=96&d=mm&r=g\",\"caption\":\"majunpeng\"},\"sameAs\":[\"http:\/\/www.majunpeng.com\"],\"url\":\"http:\/\/www.majunpeng.com\/index.php\/author\/majunpeng\/\"}]}<\/script>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\/","og_locale":"zh_CN","og_type":"article","og_title":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","og_description":"\u5f15\u8a00 \u4f20\u7edf\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u901a\u5e38\u4ee5\u5206\u53c9\u5f0f\u7cfb\u7edf\u53d1\u80b2\u6811\u4e3a\u6846\u67b6\uff0c\u5047\u8bbe\u7269\u79cd\u6f14\u5316\u4ec5\u901a\u8fc7\u8c31\u7cfb\u5206\u5316\u5b8c\u6210\u3002\u7136\u800c\uff0c\u5728\u771f\u5b9e\u7684\u8fdb\u5316\u8fc7\u7a0b\u4e2d\uff0c ... \u9605\u8bfb\u66f4\u591a","og_url":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316\/","og_site_name":"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","article_published_time":"2026-03-02T15:52:02+00:00","article_modified_time":"2026-03-03T14:55:58+00:00","og_image":[{"width":2560,"height":1097,"url":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png","type":"image\/png"}],"author":"majunpeng","twitter_card":"summary_large_image","twitter_misc":{"\u4f5c\u8005":"majunpeng","\u9884\u8ba1\u9605\u8bfb\u65f6\u95f4":"2 \u5206"},"schema":{"@context":"https:\/\/schema.org","@graph":[{"@type":"Article","@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#article","isPartOf":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/"},"author":{"name":"majunpeng","@id":"http:\/\/www.majunpeng.com\/#\/schema\/person\/6391320b50d457bc7b38047f95d65474"},"headline":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316","datePublished":"2026-03-02T15:52:02+00:00","dateModified":"2026-03-03T14:55:58+00:00","mainEntityOfPage":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/"},"wordCount":25,"commentCount":0,"publisher":{"@id":"http:\/\/www.majunpeng.com\/#organization"},"image":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage"},"thumbnailUrl":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png","articleSection":["\u7cfb\u7edf\u53d1\u80b2"],"inLanguage":"zh-Hans","potentialAction":[{"@type":"CommentAction","name":"Comment","target":["http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#respond"]}]},{"@type":"WebPage","@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/","url":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/","name":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316 - \u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","isPartOf":{"@id":"http:\/\/www.majunpeng.com\/#website"},"primaryImageOfPage":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage"},"image":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage"},"thumbnailUrl":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-1024x439.png","datePublished":"2026-03-02T15:52:02+00:00","dateModified":"2026-03-03T14:55:58+00:00","breadcrumb":{"@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#breadcrumb"},"inLanguage":"zh-Hans","potentialAction":[{"@type":"ReadAction","target":["http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/"]}]},{"@type":"ImageObject","inLanguage":"zh-Hans","@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#primaryimage","url":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png","contentUrl":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2026\/03\/plot4-net0123_1-scaled.png","width":2560,"height":1097},{"@type":"BreadcrumbList","@id":"http:\/\/www.majunpeng.com\/index.php\/2026\/03\/02\/phylonetworks%ef%bc%9a%e6%a3%80%e6%b5%8b%e7%b3%bb%e7%bb%9f%e5%8f%91%e8%82%b2%e5%88%86%e6%9e%90%e4%b8%ad%e7%9a%84%e7%bd%91%e7%8a%b6%e8%bf%9b%e5%8c%96\/#breadcrumb","itemListElement":[{"@type":"ListItem","position":1,"name":"\u9996\u9875","item":"http:\/\/www.majunpeng.com\/"},{"@type":"ListItem","position":2,"name":"PhyloNetworks\uff1a\u68c0\u6d4b\u7cfb\u7edf\u53d1\u80b2\u5206\u6790\u4e2d\u7684\u7f51\u72b6\u8fdb\u5316"}]},{"@type":"WebSite","@id":"http:\/\/www.majunpeng.com\/#website","url":"http:\/\/www.majunpeng.com\/","name":"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","description":"","publisher":{"@id":"http:\/\/www.majunpeng.com\/#organization"},"potentialAction":[{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"http:\/\/www.majunpeng.com\/?s={search_term_string}"},"query-input":{"@type":"PropertyValueSpecification","valueRequired":true,"valueName":"search_term_string"}}],"inLanguage":"zh-Hans"},{"@type":"Organization","@id":"http:\/\/www.majunpeng.com\/#organization","name":"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0","url":"http:\/\/www.majunpeng.com\/","logo":{"@type":"ImageObject","inLanguage":"zh-Hans","@id":"http:\/\/www.majunpeng.com\/#\/schema\/logo\/image\/","url":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2024\/10\/\u5fae\u4fe1\u56fe\u7247_20241011142506.jpg","contentUrl":"http:\/\/www.majunpeng.com\/wp-content\/uploads\/2024\/10\/\u5fae\u4fe1\u56fe\u7247_20241011142506.jpg","width":338,"height":333,"caption":"\u5c0f\u9a6c\u751f\u4fe1\u65e5\u8bb0"},"image":{"@id":"http:\/\/www.majunpeng.com\/#\/schema\/logo\/image\/"}},{"@type":"Person","@id":"http:\/\/www.majunpeng.com\/#\/schema\/person\/6391320b50d457bc7b38047f95d65474","name":"majunpeng","image":{"@type":"ImageObject","inLanguage":"zh-Hans","@id":"http:\/\/www.majunpeng.com\/#\/schema\/person\/image\/","url":"https:\/\/secure.gravatar.com\/avatar\/ce816a2eab088d1443102c99c45948bde4a97722f3eaac31524215496138f9cc?s=96&d=mm&r=g","contentUrl":"https:\/\/secure.gravatar.com\/avatar\/ce816a2eab088d1443102c99c45948bde4a97722f3eaac31524215496138f9cc?s=96&d=mm&r=g","caption":"majunpeng"},"sameAs":["http:\/\/www.majunpeng.com"],"url":"http:\/\/www.majunpeng.com\/index.php\/author\/majunpeng\/"}]}},"_links":{"self":[{"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/posts\/2970","targetHints":{"allow":["GET"]}}],"collection":[{"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/comments?post=2970"}],"version-history":[{"count":7,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/posts\/2970\/revisions"}],"predecessor-version":[{"id":2985,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/posts\/2970\/revisions\/2985"}],"wp:attachment":[{"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/media?parent=2970"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/categories?post=2970"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.majunpeng.com\/index.php\/wp-json\/wp\/v2\/tags?post=2970"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}