{"id":451,"date":"2025-02-21T19:13:12","date_gmt":"2025-02-21T11:13:12","guid":{"rendered":"https:\/\/www.kz-hub.tech\/?p=451"},"modified":"2025-02-21T19:18:33","modified_gmt":"2025-02-21T11:18:33","slug":"vcf2maf","status":"publish","type":"post","link":"https:\/\/www.kz-hub.tech\/index.php\/2025\/02\/21\/vcf2maf\/","title":{"rendered":"vcf2maf"},"content":{"rendered":"<pre><code class=\"language-bash\">perl -ne &#039;chomp;next if($_=~\/^$\/);my @a=split \/\\t\/;print &quot;\/data02\/zhangmengmeng\/software\/vcf2maf-main\/vcf2maf.pl --input-vcf $a[0].somatic.FAA.vcf --output-maf $a[0].maf --normal-id $a[1] --tumor-id $a[0] --vcf-tumor-id $a[0] --vcf-normal-id $a[1] --vep-path ~\/anaconda3\/envs\/vep\/bin --vep-data \/data02\/zhangmengmeng\/database\/vep --ref-fasta \/data02\/zhangmengmeng\/database\/hg38\/gencode_GRCh38.p14.genome.fa --verbose --ncbi-build GRCh38 --cache-version 113 &amp;&amp; cat $a[0].maf|grep -E \\&quot;version|FILTER|PASS\\&quot; &gt; $a[0]_filtered.maf &amp;&amp; echo $a[0] vcf2maf ok\\n&quot;&#039; sample_pair.txt &gt;vcf2maf.sh<\/code><\/pre>\n","protected":false},"excerpt":{"rendered":"<p>perl -ne &#039;chomp;next if($_=~\/^$\/);my @a=split \/\\t\/&#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-451","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\/451","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=451"}],"version-history":[{"count":2,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts\/451\/revisions"}],"predecessor-version":[{"id":453,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/posts\/451\/revisions\/453"}],"wp:attachment":[{"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/media?parent=451"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/categories?post=451"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.kz-hub.tech\/index.php\/wp-json\/wp\/v2\/tags?post=451"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}