{"id":2066,"date":"2013-12-17T13:08:40","date_gmt":"2013-12-17T05:08:40","guid":{"rendered":"http:\/\/www.chenlianfu.com\/?p=2066"},"modified":"2013-12-17T15:07:45","modified_gmt":"2013-12-17T07:07:45","slug":"go-slim","status":"publish","type":"post","link":"http:\/\/www.chenlianfu.com\/?p=2066","title":{"rendered":"GO slim"},"content":{"rendered":"

1. GO slim\u7b80\u4ecb<\/h1>\n

GO slims<\/a> are cut-down versions of the GO ontologies containing a subset of the terms in the whole GO. They give a broad overview of the ontology content without the detail of the specific fine grained terms.
\n\u7b80\u5355\u5730\u8bb2\uff0cGO slim \u80fd\u7b80\u5316 GO \u7684\u6ce8\u91ca\u7ed3\u679c\uff0c\u5c06\u6240\u6709\u7684 GO \u6ce8\u91ca\u5f52\u7c7b\u5230\u6307\u5b9a\u7684\u6570\u4e2a GO \u529f\u80fd\u5206\u7c7b\u4e0a\u3002
\n\u70b9\u51fb\u8fdb\u5165\uff1aGO Database Guide<\/a>
\n\u70b9\u51fb\u8fdb\u5165\uff1aOntology Downloads<\/a><\/p>\n

2. \u5b89\u88c5go-perl<\/h1>\n

\u65b9\u6cd51\uff1a<\/p>\n

\r\n# perl -MCPAN -e shell\r\ncpan[1]> install GO::Parser\r\n<\/pre>\n
\u65b9\u6cd52\uff1a<\/p>\n
\r\n$ wget http:\/\/search.cpan.org\/CPAN\/authors\/id\/C\/CM\/CMUNGALL\/go-perl-0.15.tar.gz\r\n$ tar zxf go-perl-0.15.tar.gz\r\n$ cd go-perl-0.15\r\n$ perl Makefile.PL\r\n$ make \r\n$ sudo make install\r\n<\/pre>\n
\u67e5\u770bgo-perl\u7684\u8bf4\u660e\u6587\u6863<\/p>\n
$ perldoc go-perl.pod<\/pre>\n
3. map2slim\u7684\u4f7f\u7528<\/h1>\n
\u7528\u6cd5\uff1a<\/p>\n
\r\n$ map2slim GO_slims\/goslim_generic.obo ontology\/gene_ontology.obo \\\r\ngene-associations\/gene_association.fb\r\n<\/pre>\n
gene_ontology.obo\u548cgoslim_generic.obo\u6587\u4ef6\u5728Ontology Downloads<\/a>\u4e2d\u4e0b\u8f7d\u3002
\n\u64cd\u4f5c\u7684\u5bf9\u8c61\u4e3aGAF\u683c\u5f0f<\/a>\u6587\u4ef6\u3002\u5f53\u7136\u6b64\u6587\u4ef6\u53ef\u4ee5\u7528blast2go\u7684\u4e13\u4e1a\u7248\u751f\u6210\u3002<\/p>\n
\u4f7f\u7528map2slim\u7684\u4f18\u70b9\u662f\u53ef\u4ee5\u81ea\u5df1\u6784\u5efa\u5c5e\u4e8e\u81ea\u5df1\u7269\u79cd\u7684obo\u6587\u4ef6\uff0c\u7136\u540e\u8fd0\u884c\u8be5\u7a0b\u5e8f\u67e5\u770b\u6240\u611f\u5174\u8da3\u7684\u529f\u80fd\u57fa\u56e0\u7684\u6570\u76ee\u3002<\/p>\n
4. \u4f7f\u7528blast2go\u505agoslim<\/h1>\n
blast2go\u505agoslim\u5c31\u5f88\u7b80\u5355\u4e86\uff0c\u4f46\u662f\u53ea\u80fd\u4f7f\u7528\u5b98\u7f51\u6240\u516c\u8ba4\u7684\u51e0\u4e2aobo\u6587\u4ef6\u505agoslim\u3002<\/p>\n","protected":false},"excerpt":{"rendered":"
1. GO slim\u7b80\u4ecb GO slims are cut-down versi … \u7ee7\u7eed\u9605\u8bfb →<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":[],"categories":[3],"tags":[],"_links":{"self":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2066"}],"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=2066"}],"version-history":[{"count":6,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2066\/revisions"}],"predecessor-version":[{"id":2072,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=\/wp\/v2\/posts\/2066\/revisions\/2072"}],"wp:attachment":[{"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=2066"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=2066"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.chenlianfu.com\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=2066"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}