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VERSION:2.0
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CALSCALE:GREGORIAN
BEGIN:VEVENT
DTSTAMP:20260808T220425Z
UID:b88e825b-372f-4299-bd7c-857ea72c818e
DTSTART:20170712T083000Z
DTEND:20170714T160000Z
DESCRIPTION:This workshop will focus on the core steps involved in calling 
 variants with the [Broad’s Genome Analysis Toolkit](https://www.broadins
 titute.org/gatk/)\, using the “Best Practices” developed by the GATK t
 eam. You will learn why each step is essential to the variant discovery pr
 ocess\, what are the operations performed on the data at each step\, and h
 ow to use the GATK tools to get the most accurate and reliable results out
  of your dataset.\n\nIn the course of this workshop\, we highlight key fun
 ctionalities such as the germline GVCF workflow for joint variant discover
 y in cohorts\, RNAseq­ specific processing\, and somatic variant discover
 y using MuTect2. We also preview capabilities of the upcoming GATK version
  4\, including a new workflow for CNV discovery\, and we demonstrate the u
 se of pipelining tools to assemble and execute GATK workflows.\n\nThe work
 shop is composed of one day of lectures and two days of hands­on training
 \, structured as follows. Day 1: theory and application of the Best Practi
 ces for Variant Discovery in high­throughput sequencing data. Day 2 and t
 he morning of Day 3: hands­on exercises on how to manipulate the standard
  data formats involved in variant discovery and how to apply GATK tools ap
 propriately to various use cases and data types. Day 3 afternoon: hands-on
  exercises on how to write workflow scripts using WDL\, the Broad's new Wo
 rkflow Description Language\, and to execute these workflows locally as we
 ll as through a publicly accessible cloud-based service.\n\nPlease note th
 at this workshop is focused on human data analysis. The majority of the ma
 terials presented does apply equally to non­human data\, and we will addr
 ess some questions regarding adaptations that are needed for analysis of n
 on­-human data\, but we will not go into much detail on those points.\n\n
 Please note that if you are not eligible for a University of Cambridge [Ra
 ven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to 
 Book or register Interest by linking [here](http://bioinfotraining.bio.cam
 .ac.uk/booking-form/?event-id=2047357&amp\;course-title=Variant%20Analysis
 %20with%20GATK).''
LOCATION:Craik-Marshall Building
SUMMARY:Variant Analysis with GATK
URL;VALUE=URI:http://training.csx.cam.ac.uk/bioinformatics/event/2047357
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