{"id":619,"date":"2022-09-08T17:47:45","date_gmt":"2022-09-08T17:47:45","guid":{"rendered":"https:\/\/terrabioappdev.wpenginepowered.com\/learn-about-running-bioinformatics-workflows-in-the-cloud\/"},"modified":"2023-12-27T04:55:41","modified_gmt":"2023-12-27T04:55:41","slug":"learn-about-running-bioinformatics-workflows-in-the-cloud","status":"publish","type":"post","link":"https:\/\/terra.bio\/learn-about-running-bioinformatics-workflows-in-the-cloud\/","title":{"rendered":"Learn about running bioinformatics workflows in the cloud"},"content":{"rendered":"<p><span style=\"font-weight: 400;\">Are you looking to expand your skillset this September? Whether you&#8217;re heading back to school for a new academic year or just itching to tackle some new professional challenges, there&#8217;s one topic that I can guarantee you will benefit from learning more about: bioinformatics workflows.\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">Last week, I presented an overview of this topic, in a webinar hosted by a Brazilian organization that brings together several institutions&#8217; PhD programs in bioinformatics. I knew it was going to be a very heterogeneous audience, ranging from complete beginners to experienced professional bioinformaticians, so I tried to make the presentation accessible to newcomers while still including some nuggets of more advanced information for the veterans.<\/span><\/p>\n<p><span style=\"font-weight: 400;\">The resulting presentation, which I&#8217;ve just <\/span><a href=\"https:\/\/zenodo.org\/record\/7062397#.YxoR-ezMLzd\"><span style=\"font-weight: 400;\">posted on Zenodo<\/span><\/a><span style=\"font-weight: 400;\">, starts with a brief introduction to the topic of bioinformatics workflows, with a particular emphasis on execution in the cloud. It then introduces the Workflow Definition Language (WDL), outlining the basic syntax and key features of the language, as well as the Cromwell execution engine, which is available as a managed service in Terra but can also be deployed as a standalone workflow manager on other systems. Finally, the presentation references three published scientific use cases that exemplify how WDL, Cromwell and Terra can be used to power scalable and reproducible research in the biomedical community.<\/span><\/p>\n<p><span style=\"font-weight: 400;\">You can find the <\/span><a href=\"https:\/\/www.youtube.com\/watch?v=3AMJ-LlWRtE&amp;t=774s\"><span style=\"font-weight: 400;\">full webinar recording<\/span><\/a><span style=\"font-weight: 400;\"> on YouTube, with my presentation starting around the 13-minute mark, and the Q&amp;A discussion starting around the 56-minute mark.\u00a0<\/span><\/p>\n<p>&nbsp;<\/p>\n<p><iframe title=\"BrazWebinars: Dr\u00aa Geraldine Van der Auwera, Broad Institute of MIT and Harvard\" width=\"800\" height=\"450\" src=\"https:\/\/www.youtube.com\/embed\/3AMJ-LlWRtE?start=774&#038;feature=oembed\" frameborder=\"0\" allow=\"accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture; web-share\" allowfullscreen><\/iframe><\/p>\n<p>&nbsp;<\/p>\n<p><span style=\"font-weight: 400;\">If you&#8217;re new to this topic, I hope you will find this presentation useful for getting oriented. Once you&#8217;re ready to take the next step and actually try your hand at running a workflow, I recommend checking out the Terra <\/span><a href=\"https:\/\/support.terra.bio\/hc\/en-us\/articles\/360043454592-Workflows-Quickstart-Part-1-Run-pre-configured-workflow\"><span style=\"font-weight: 400;\">Workflows Quickstart<\/span><\/a><span style=\"font-weight: 400;\">. It&#8217;s a hands-on tutorial designed to walk you through the process of running a simple workflow on the cloud using Terra, with detailed step by step instructions and video recordings. Once you have the basics down, you&#8217;ll be able to move on to running more complex workflows imported through <\/span><a href=\"https:\/\/dockstore.org\/\"><span style=\"font-weight: 400;\">Dockstore.org<\/span><\/a><span style=\"font-weight: 400;\">, or start learning how to write your own workflows.\u00a0<\/span><\/p>\n<p><span style=\"font-weight: 400;\">Along the way, you&#8217;ll pick up new knowledge and skills that will certainly come in handy as you develop your professional career. Good luck! <\/span><\/p>\n","protected":false},"excerpt":{"rendered":"<p>New webinar recording helps newcomers to bioinformatics workflows get oriented and learn to run workflows on the cloud<\/p>\n","protected":false},"author":4,"featured_media":620,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[53,38,39,32],"tags":[],"class_list":["post-619","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-getting-started","category-tutorials","category-videos","category-workflows"],"acf":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.0 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Learn about running bioinformatics workflows in the cloud - Terra<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/terra.bio\/learn-about-running-bioinformatics-workflows-in-the-cloud\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Learn about running bioinformatics workflows in the cloud - 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