{"id":48,"date":"2021-10-08T16:04:10","date_gmt":"2021-10-08T15:04:10","guid":{"rendered":"https:\/\/wordpress.vdjbase.org\/?p=48"},"modified":"2025-08-15T15:27:07","modified_gmt":"2025-08-15T14:27:07","slug":"creating-a-select-set","status":"publish","type":"post","link":"https:\/\/wordpress.vdjbase.org\/index.php\/ogrdb\/creating-a-select-set\/","title":{"rendered":"Creating a select set"},"content":{"rendered":"\n<p>A select set is a set of reads taken from a single repertoire that directly support a specific inference.<\/p>\n\n\n\n<p>In outline, the process to create the set is as follows:<\/p>\n\n\n\n<ul class=\"wp-block-list\"><li>For a paired-end-read dataset, merge all paired-end reads<\/li><li>Align reads to the inferred allele reference<\/li><li>Filter the output to an identity of at least 96%<\/li><li>Filter reads to match the novel allele&#8217;s SNPs<\/li><li>Create a select set matching the filtered reads (for a paired-end-read dataset, this should consist of the original unpaired reads)<\/li><\/ul>\n\n\n\n<p>A <a href=\"https:\/\/bitbucket.org\/yaarilab\/selectset\/src\/master\/\">script and associated docker image<\/a> have been created to perform these steps. You can use the script directly, derive from it, or follow your own procedure if you prefer.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>A select set is a set of reads taken from a single repertoire that directly support a specific inference. In outline, the process to create the set is as follows: For a paired-end-read dataset, merge all paired-end reads Align reads to the inferred allele reference Filter the output to an identity of at least 96%&hellip; <a class=\"more-link\" href=\"https:\/\/wordpress.vdjbase.org\/index.php\/ogrdb\/creating-a-select-set\/\">Continue reading <span class=\"screen-reader-text\">Creating a select set<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[6],"tags":[20],"class_list":["post-48","post","type-post","status-publish","format-standard","hentry","category-ogrdb","tag-submission","entry"],"_links":{"self":[{"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/posts\/48","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/comments?post=48"}],"version-history":[{"count":1,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/posts\/48\/revisions"}],"predecessor-version":[{"id":49,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/posts\/48\/revisions\/49"}],"wp:attachment":[{"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/media?parent=48"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/categories?post=48"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/wordpress.vdjbase.org\/index.php\/wp-json\/wp\/v2\/tags?post=48"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}