{"id":671,"date":"2026-02-05T19:12:59","date_gmt":"2026-02-05T11:12:59","guid":{"rendered":"https:\/\/www.kz-hub.tech\/?p=671"},"modified":"2026-02-05T19:12:59","modified_gmt":"2026-02-05T11:12:59","slug":"%e4%bb%8e-fasta-%e5%88%9b%e5%bb%ba%e7%94%a8%e4%ba%8e-gatk-wgs-%e6%b5%81%e7%a8%8b%e7%9a%84-interval-list","status":"publish","type":"post","link":"https:\/\/www.kz-hub.tech\/index.php\/2026\/02\/05\/%e4%bb%8e-fasta-%e5%88%9b%e5%bb%ba%e7%94%a8%e4%ba%8e-gatk-wgs-%e6%b5%81%e7%a8%8b%e7%9a%84-interval-list\/","title":{"rendered":"\u4ece fasta \u521b\u5efa\u7528\u4e8e GATK WGS \u6d41\u7a0b\u7684 interval list"},"content":{"rendered":"<pre><code># \u7528 fasta \u521b\u5efa faidx \u548c dict \u7d22\u5f15\ngatk CreateSequenceDictionary -R genecode_GRCh38.p14.genome.fa\nsamtools faidx genecode_GRCh38.p14.genome.fa\n\n# \u7528 fadix \u7d22\u5f15\u6587\u4ef6\u751f\u6210\u53c2\u8003\u57fa\u56e0\u7ec4\u7684 bed \u6587\u4ef6\nawk -v FS=&quot;\\t&quot; -v OFS=&quot;\\t&quot; &#039;{print $1 FS &quot;0&quot; FS ($2-1)}&#039; genecode_GRCh38.p14.genome.fa.fai &gt; genecode_GRCh38.p14.genome.bed\n# \u79fb\u9664 blacklist\uff0c\u5982\u679c\u6709\u5176\u4ed6\u533a\u57df\u9700\u8981\u79fb\u9664\uff0c\u540c\u6837\u64cd\u4f5c\nbedtools subtract -a genecode_GRCh38.p14.genome.bed -b \/home\/zhoukaiwen\/database\/gatk_bundle\/hg38\/hg38.blacklist.bed &gt; genecode_GRCh38.p14.genome.interval.bed\n# \u4ece bed \u683c\u5f0f\u8f6c\u6362\u5230 interval list \u683c\u5f0f\ngatk BedToIntervalList -I genecode_GRCh38.p14.genome.interval.bed -O genecode_GRCh38.p14.genome.interval_list -SD genecode_GRCh38.p14.genome.dict\n<\/code><\/pre>\n","protected":false},"excerpt":{"rendered":"<p># \u7528 fasta \u521b\u5efa faidx \u548c dict \u7d22\u5f15 gatk CreateSequenceDiction&#8230;<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[],"class_list":["post-671","post","type-post","status-publish","format-standard","hentry","category-uncategorized"],"_links":{"self":[{"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts\/671","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/comments?post=671"}],"version-history":[{"count":1,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts\/671\/revisions"}],"predecessor-version":[{"id":672,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts\/671\/revisions\/672"}],"wp:attachment":[{"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/media?parent=671"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/categories?post=671"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/tags?post=671"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}