{"id":29,"date":"2015-11-28T11:29:52","date_gmt":"2015-11-28T14:29:52","guid":{"rendered":"http:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/?page_id=29"},"modified":"2015-12-09T16:07:16","modified_gmt":"2015-12-09T19:07:16","slug":"program","status":"publish","type":"page","link":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/program\/","title":{"rendered":"Program"},"content":{"rendered":"<p><strong>Day Zero: &#8220;Preparing the Workshop&#8221;<\/strong><\/p>\n<ul>\n<li><a href=\"https:\/\/docs.google.com\/forms\/d\/1psjiMJqwyVDl7CNUi28xgBoB5bxp-zpkPqwR4fqarfg\/viewform?usp=send_form\" target=\"_blank\">Questionnaire<\/a>: Please answer as soon as possible<\/li>\n<li><a href=\"https:\/\/auth.iplantcollaborative.org\/cas4\/login?service=https:\/\/user.iplantcollaborative.org\/security\/authenticate\" target=\"_blank\">Login<\/a> and\u00a0<a href=\"http:\/\/user.iplantcollaborative.org\" target=\"_blank\">Open an account<\/a><\/li>\n<li><a href=\"https:\/\/pods.iplantcollaborative.org\/wiki\/download\/attachments\/21135454\/PreWorkshopPacket_sep2015.pdf?version=1&amp;modificationDate=1442244201000&amp;api=v2\" target=\"_blank\">Material to prepare the workshop<\/a><\/li>\n<li><a href=\"https:\/\/pods.iplantcollaborative.org\/wiki\/display\/start\/Getting+Started+with+iPlant\" target=\"_blank\">i-Plant Tutorials<\/a><\/li>\n<\/ul>\n<p><strong>Day One: Thursday December 17, 2015<\/strong><\/p>\n<ul>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">8:30-9:00 Overview of iPlant\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">9:00-9:45 Introduction to iPlant Discovery Environment (DE)\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">9:45-10:30 Data Management and Collaborating with the iPlant Data Store\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">10:30-11:00 <strong>Coffee-Break <\/strong><\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">11:00-12:00 Setting up an Analysis Pipeline in the DE\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">12:00-13:00 RNASeq processing\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">13:00-14:00 <strong>LUNCH\u00a0<\/strong>(light lunch in the room)<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">14:00-15:00 Examining Differential Expression in an RNA-Seq Dataset\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">15:00-16:00 Introduction to Atmosphere Cloud Computing\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\">16:00-16:15\u00a0<strong>Coffee-Break<\/strong><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">16:15-17:15 iPlant Data Store: Expanded use\u00a0<\/span><\/li>\n<\/ul>\n<p><strong>Day Two: Friday December 18, 2015<\/strong><\/p>\n<ul>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">8:30-10:30<em> Track one:<\/em>\u00a0Genome management, visualization, and analyses (Eric Lyons)<\/span>\n<ul>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">Genome Management and Visualization (with CoGe)<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">Comparative Genomics (with CoGe)<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">RNASeq\/SNP pipelines (with CoGe)<\/span><\/li>\n<\/ul>\n<\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\"><em>8:30-10:30 Track two:<\/em>\u00a0Computational virtualization (Nirav Merchant, 3h)<\/span>\n<ul>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">Intro to virtualization<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">Full virtual machines: Atmosphere (OpenStack)<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">Container technology: Docker (Deploying tools in DE)<\/span><\/li>\n<\/ul>\n<\/li>\n<li><span style=\"font-weight: 400\">10:30-11:00\u00a0<strong>Coffee-Break<\/strong><\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">11:00-13:00 Visualization of RNA-Seq Data with R in Atmosphere &#8212; covered in CoGe workshop<\/span><\/li>\n<li><span style=\"font-weight: 400\">13:00-14:00\u00a0<strong>LUNCH <\/strong>(light lunch in the room)<\/span><\/li>\n<li style=\"font-weight: 400\"><span style=\"font-weight: 400\">14:00-16:00 Tools for Association Analysis \u2013GWAS Pipeline\u00a0<\/span><\/li>\n<li style=\"font-weight: 400\">16:00-16:15<strong> Coffee-Break\u00a0<\/strong><\/li>\n<li style=\"font-weight: 400\">16:15-17:15 Tools and Tool integration \u2013Advanced Phylogenetics<\/li>\n<li style=\"font-weight: 400\">17:15-18:30\u00a0<span style=\"font-weight: 400\">Other topics for last discussion:<\/span>\n<ul>\n<li><span style=\"font-weight: 400\">Genome Assembly with ALLPATHS\u00a0<\/span><\/li>\n<li><span style=\"font-weight: 400\">Genome Annotation \u2013 MAKER\u00a0<\/span><\/li>\n<li><span style=\"font-weight: 400\">Getting started with iPlant Foundation API\u00a0<\/span><\/li>\n<\/ul>\n<\/li>\n<li>20:00-23:00 \u00a0<strong>Workshop Dinner<\/strong> (all participants are invited to \u00a0<a href=\"http:\/\/www.hoteltorremayor.cl\/\">http:\/\/www.hoteltorremayor.cl\/<\/a>)<\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"<p>Day Zero: &#8220;Preparing the Workshop&#8221; Questionnaire: Please answer as soon as possible Login and\u00a0Open an account Material to prepare the workshop i-Plant Tutorials Day One: Thursday December 17, 2015 8:30-9:00 Overview of iPlant\u00a0 9:00-9:45 Introduction to iPlant Discovery Environment (DE)\u00a0 9:45-10:30 Data Management and Collaborating with the iPlant Data Store\u00a0 10:30-11:00 Coffee-Break 11:00-12:00 Setting up &hellip; <a href=\"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/program\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">Program<\/span> <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":38,"featured_media":0,"parent":0,"menu_order":2,"comment_status":"closed","ping_status":"closed","template":"","meta":{"inline_featured_image":false,"footnotes":""},"class_list":["post-29","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/pages\/29","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/users\/38"}],"replies":[{"embeddable":true,"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/comments?post=29"}],"version-history":[{"count":18,"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/pages\/29\/revisions"}],"predecessor-version":[{"id":109,"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/pages\/29\/revisions\/109"}],"wp:attachment":[{"href":"https:\/\/eventos.cmm.uchile.cl\/iplantchile2015\/wp-json\/wp\/v2\/media?parent=29"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}