{"id":302,"date":"2006-10-26T16:42:55","date_gmt":"2006-10-26T20:42:55","guid":{"rendered":"http:\/\/vitamin-max.com\/word\/?p=302"},"modified":"2006-10-26T16:42:55","modified_gmt":"2006-10-26T20:42:55","slug":"most-user-un-friendly-phylogenetic-program-found","status":"publish","type":"post","link":"https:\/\/vitamin-max.com\/word\/2006\/10\/most-user-un-friendly-phylogenetic-program-found\/","title":{"rendered":"Most User Un-Friendly Phylogenetic Program Found!"},"content":{"rendered":"<p>And the winner is <a href=\"http:\/\/abacus.gene.ucl.ac.uk\/software\/paml.html\">PAML<\/a>(Phylogenetic Analysis by Maximum Likelihood) by Ziheng Yang!<\/p>\n<p>I thought BioX is the best &#8220;bridge&#8221; between different programs because it supports so many different format. But PHYLIP and PAUP* format sequences generated by BioX are NOT readable by PAML&#8217;s yn00 program, although PAML claim to support PHYLIP and PAUP* nexus.<\/p>\n<p>Well, maybe it is because me who hasn&#8217;t found a good way to do this. But you have to write control file for the program to run. And basically every sequence you are going to run, kind of need a different control file. And this is really unbelievable.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>And the winner is PAML(Phylogenetic Analysis by Maximum Likelihood) by Ziheng Yang! I thought BioX is the best &#8220;bridge&#8221; between different programs because it supports so many different format. But PHYLIP and PAUP* format sequences generated by BioX are NOT readable by PAML&#8217;s yn00 program, although PAML claim to support PHYLIP and PAUP* nexus. Well,&hellip; <a class=\"more-link\" href=\"https:\/\/vitamin-max.com\/word\/2006\/10\/most-user-un-friendly-phylogenetic-program-found\/\">Continue reading <span class=\"screen-reader-text\">Most User Un-Friendly Phylogenetic Program Found!<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"ngg_post_thumbnail":0,"footnotes":""},"categories":[10],"tags":[],"class_list":["post-302","post","type-post","status-publish","format-standard","hentry","category--biological-science","entry"],"_links":{"self":[{"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/posts\/302","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/comments?post=302"}],"version-history":[{"count":0,"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/posts\/302\/revisions"}],"wp:attachment":[{"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/media?parent=302"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/categories?post=302"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/vitamin-max.com\/word\/wp-json\/wp\/v2\/tags?post=302"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}