{"id":2118,"date":"2014-06-09T21:37:41","date_gmt":"2014-06-09T13:37:41","guid":{"rendered":"http:\/\/www.chenlianfu.com\/?p=2118"},"modified":"2014-06-09T21:37:41","modified_gmt":"2014-06-09T13:37:41","slug":"gage-b-%e8%bf%9b%e8%a1%8c%e5%be%ae%e7%94%9f%e7%89%a9%e5%9f%ba%e5%9b%a0%e7%bb%84%e7%bb%84%e8%a3%85%e8%bd%af%e4%bb%b6%e7%9a%84%e8%af%84%e4%bc%b0","status":"publish","type":"post","link":"http:\/\/www.chenlianfu.com\/?p=2118","title":{"rendered":"GAGE-B \u8fdb\u884c\u5fae\u751f\u7269\u57fa\u56e0\u7ec4\u7ec4\u88c5\u8f6f\u4ef6\u7684\u8bc4\u4f30"},"content":{"rendered":"<p>\u53c2\u8003\u6587\u732e\uff1a<a href=\"http:\/\/bioinformatics.oxfordjournals.org\/content\/29\/14\/1718.short\" target=\"_blank\">Magoc T, Pabinger S, Canzar S, et al. GAGE-B: an evaluation of genome assemblers for bacterial organisms[J]. Bioinformatics, 2013, 29(14): 1718-1725.<\/a><\/p>\n<p>\u8bc4\u4ef7\u4e86 8 \u4e2a\u57fa\u56e0\u7ec4\u7ec4\u88c5\u8f6f\u4ef6\uff1a ABySS CABOG MIRA MaSuRCA SGA SOAPdenovo SPAdes Velvet\u3002<br \/>\n\u82e5\u8fd9 8 \u4e2a\u8f6f\u4ef6\u7ec4\u88c5\u6548\u679c\u5168\u90e8\u4e00\u81f4\uff0c\u5219\u503c\u5168\u90e8\u4e3a 1 \u3002<\/p>\n<p>\u5bf9 7 \u4e2a\u7269\u79cd\u7684\u7ec4\u88c5\u7ed3\u679c\uff0c \u6839\u636e N50\uff0c contig \u7684\u7ec4\u88c5\u6027\u80fd\uff1a<br \/>\nABySS           0.79<br \/>\nCABOG           0.55<br \/>\nMIRA            0.85<br \/>\nMaSuRCA         2.08<br \/>\nSGA             0.24<br \/>\nSOAPdenovo      1.10<br \/>\nSPAdes          1.91<br \/>\nVelvet          0.48<\/p>\n<p>\u5bf9 5 \u4e2a\u7269\u79cd\u7684\u7ec4\u88c5\u7ed3\u679c\uff0c \u6839\u636e N50\uff0c scaffold \u7684\u7ec4\u88c5\u6027\u80fd\uff1a<br \/>\nABySS           0.76<br \/>\nCABOG           0.81<br \/>\nMIRA            0.85<br \/>\nMaSuRCA         1.53<br \/>\nSGA             0.31<br \/>\nSOAPdenovo      0.81<br \/>\nSPAdes          1.20<br \/>\nVelvet          0.72<\/p>\n<p>\u53ef\u4ee5\u770b\u51fa\uff0c\u4ece\u57fa\u56e0\u7ec4\u7684\u8fde\u7eed\u6027\u8003\u8651\uff0c\u6700\u4f73\u7684\u7ec6\u83cc\u57fa\u56e0\u7ec4\u7ec4\u88c5\u8f6f\u4ef6\u662f\uff1a<br \/>\nMaSuRCA > SPAdes \u3002\u4ec5\u6709\u8fd9\u4e24\u4e2a\u8f6f\u4ef6\u80fd\u9ad8\u4e8e\u5e73\u5747\u6c34\u5e73\uff0c \u7279\u522b\u662f MaSuRCA \u663e\u8457\u6bd4\u5176\u5b83\u8f6f\u4ef6\u8981\u597d\u3002<\/p>\n<p>\u6587\u4e2d\u6ca1\u6709\u8fdb\u884c\u7ec4\u88c5\u7ed3\u679c\u7684\u51c6\u786e\u6027\u5206\u6790\u3002\u4f46\u662f\u63d0\u5230 SOAPdenvo \u53ef\u4ee5\u4ea7\u751f\u6700\u5927\u7684 scaffolds\uff0c\u4f46\u662f\u6bd4\u5176\u5b83\u8f6f\u4ef6\u7684\u7ed3\u679c\u6709\u6839\u591a\u7684 local errors\u3002<\/p>\n<p>\u7531\u4e8e\u6570\u636e\u95ee\u9898\uff0c\u6ca1\u6709\u5bf9 ALLPATHS-LG \u8fdb\u884c\u5206\u6790\u3002<\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u53c2\u8003\u6587\u732e\uff1aMagoc T, Pabinger S, Canzar S, et a &hellip; <a href=\"http:\/\/www.chenlianfu.com\/?p=2118\">\u7ee7\u7eed\u9605\u8bfb <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":[],"categories":[1],"tags":[],"_links":{"self":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2118"}],"collection":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=2118"}],"version-history":[{"count":1,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2118\/revisions"}],"predecessor-version":[{"id":2119,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2118\/revisions\/2119"}],"wp:attachment":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=2118"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=2118"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=2118"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}