{"id":2215,"date":"2023-03-30T01:30:48","date_gmt":"2023-03-29T16:30:48","guid":{"rendered":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=2215"},"modified":"2023-03-30T01:30:51","modified_gmt":"2023-03-29T16:30:51","slug":"bioinfokrona%e3%81%a7kraken2%e3%81%ae%e7%b5%90%e6%9e%9c%e3%82%92%e5%8f%af%e8%a6%96%e5%8c%96%e3%81%99%e3%82%8b","status":"publish","type":"post","link":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=2215","title":{"rendered":"[bioinfo]krona\u3067kraken2\u306e\u7d50\u679c\u3092\u53ef\u8996\u5316\u3059\u308b"},"content":{"rendered":"\n<p>kraken2\u306e\u7d50\u679c\u3092\u53ef\u8996\u5316\u3059\u308b\u305f\u3081\u306bkrona\u3092\u30a4\u30f3\u30b9\u30c8\u30fc\u30eb\u3059\u308b\u3002conda\uff08mamba\uff09\u3067<\/p>\n\n\n\n<pre class=\"wp-block-preformatted\">mamba install -c bioconda -y krona<\/pre>\n\n\n\n<p>\u30c7\u30fc\u30bf\u30d9\u30fc\u30b9\u3092\u4f5c\u308b\u3002<\/p>\n\n\n\n<pre class=\"wp-block-preformatted\">rm -rf \/home\/user\/miniconda3\/opt\/krona\/taxonomy\nmkdir \/media\/large_disk\/krona_db\/taxonomy\nln -s \/media\/large_disk\/krona_db\/taxonomy \/home\/user\/miniconda3\/opt\/krona\/taxonomy\nktUpdateTaxonomy.sh<\/pre>\n\n\n\n<p>KtImportTaxonomy\u3092\u4f7f\u3063\u3066\u5b9f\u884c\u3059\u308b\u3002\u30ab\u30e9\u30e0\u306e\u6307\u5b9a\u306f-q\u304cquery ID\u3001-t\u304cNCBI taxonomy ID\u306e\u30ab\u30e9\u30e0\u3092\u6307\u5b9a\u3059\u308b\u306e\u3067kraken2\u306e\u5834\u5408\u306f-q 2 -t 3\u3067\u4e0b\u8a18\u306e\u3088\u3046\u306a\u30b3\u30de\u30f3\u30c9\u306b\u306a\u308b\u3002<\/p>\n\n\n\n<pre class=\"wp-block-preformatted\">ktImportTaxonomy -q 2 -t 3 kraken2_out -o krona_output.html<\/pre>\n","protected":false},"excerpt":{"rendered":"<p>kraken2\u306e\u7d50\u679c\u3092\u53ef\u8996\u5316\u3059\u308b\u305f\u3081\u306bk<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"colormag_page_container_layout":"default_layout","colormag_page_sidebar_layout":"default_layout","_locale":"ja","_original_post":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/?p=2215","footnotes":""},"categories":[7],"tags":[],"class_list":["post-2215","post","type-post","status-publish","format-standard","hentry","category-protocol","ja"],"_links":{"self":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/2215","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=2215"}],"version-history":[{"count":1,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/2215\/revisions"}],"predecessor-version":[{"id":2216,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=\/wp\/v2\/posts\/2215\/revisions\/2216"}],"wp:attachment":[{"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=2215"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=2215"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/home.hiroshima-u.ac.jp\/~tigawa\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=2215"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}