{"id":181,"date":"2015-04-03T13:36:23","date_gmt":"2015-04-03T13:36:23","guid":{"rendered":"https:\/\/aciref.rc.fas.harvard.edu\/?p=181"},"modified":"2015-04-03T13:36:23","modified_gmt":"2015-04-03T13:36:23","slug":"genome-alignment-workflow","status":"publish","type":"post","link":"https:\/\/aciref.chpc.utah.edu\/?p=181","title":{"rendered":"Whole genome alignment"},"content":{"rendered":"<blockquote><p><em>Whole genome alignment is crucial to a large number of important applications in genomics, and is particularly important to our work on convergent evolution in birds. The current state of the art software for whole genome alignment is progressiveCactus, developed by the same group that built the UCSC genome browser. Getting this software to work in our computing environment is thus extremely important to our scientific progress, and there is no way we could do it without the the help of the ACI-REF team at Harvard. \u00a0<strong>\u2013 Tim Sackton, Harvard University PostDoc, on Harvard ACI-REFs Bob Freeman and Aaron Kitzmiller<\/strong><\/em><\/p><\/blockquote>\n<figure id=\"attachment_214\" aria-describedby=\"caption-attachment-214\" style=\"width: 610px\" class=\"wp-caption aligncenter\"><a href=\"https:\/\/aciref.chpc.utah.edu\/wp-content\/uploads\/2015\/04\/blog-gene.jpg\"><img loading=\"lazy\" decoding=\"async\" class=\"size-large wp-image-214\" src=\"https:\/\/aciref.rc.fas.harvard.edu\/wp-content\/uploads\/2015\/04\/blog-gene-1024x768.jpg\" alt=\"DNA Double Helix - NHGRI\" width=\"610\" height=\"458\" srcset=\"https:\/\/aciref.chpc.utah.edu\/wp-content\/uploads\/2015\/04\/blog-gene-1024x768.jpg 1024w, https:\/\/aciref.chpc.utah.edu\/wp-content\/uploads\/2015\/04\/blog-gene-300x225.jpg 300w, https:\/\/aciref.chpc.utah.edu\/wp-content\/uploads\/2015\/04\/blog-gene-768x576.jpg 768w, https:\/\/aciref.chpc.utah.edu\/wp-content\/uploads\/2015\/04\/blog-gene.jpg 1200w\" sizes=\"auto, (max-width: 610px) 100vw, 610px\" \/><\/a><figcaption id=\"caption-attachment-214\" class=\"wp-caption-text\">DNA Double Helix &#8211; NHGRI<\/figcaption><\/figure>\n","protected":false},"excerpt":{"rendered":"<p>Whole genome alignment is crucial to a large number of important applications in genomics, and is particularly important to our work on convergent evolution in birds. The current state of the art software for whole genome alignment is progressiveCactus, developed by the same group that built the UCSC genome browser. Getting this software to work [&hellip;]<\/p>\n","protected":false},"author":2,"featured_media":0,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[3,4],"tags":[19,31,34,40],"class_list":["post-181","post","type-post","status-publish","format-standard","hentry","category-impact","category-life-sciences","tag-harvard","tag-research-stories","tag-testimonial","tag-workflow"],"_links":{"self":[{"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=\/wp\/v2\/posts\/181","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=181"}],"version-history":[{"count":0,"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=\/wp\/v2\/posts\/181\/revisions"}],"wp:attachment":[{"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=181"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=181"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/aciref.chpc.utah.edu\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=181"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}