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DTSTAMP:20260614T141315Z
UID:7979ce3c-09f5-4867-9fd5-4776f8b23206
DTSTART:20210527T030000Z
DTEND:20210527T070000Z
DESCRIPTION:Bacteria evolve rapidly\, acquiring and purging DNA changes in 
 response to their changing environments. Many bacteria can be cultured\, a
 llowing researchers to study DNA variants from a single organism source\, 
 unlike variant analysis in polyploids. Comparison of variants between sing
 le organisms gives insight not only into their individual characteristics 
 (such as antimicrobial resistance) but at a population level allows for ph
 ylogenetic mapping to determine the relatedness between samples.\n\nIn thi
 s online workshop we focus on the tools and workflows available for varian
 t calling in bacteria in Galaxy Australia. During the workshop you will ge
 t hands-on experience using Snippy for genetic variation detection and ann
 otation\, and JBrowse to visualise variants. The workshop makes use of dat
 a from a case study on antimicrobial resistance in Mycobacterium tuberculo
 sis however the tools and workflows are equally applicable to other bacter
 ia and biological questions.\n\nAccess to all of the tools covered in this
  workshop is via [Galaxy Australia](https://usegalaxy.org.au/)\, an online
  platform for biological research that allows people to use computational 
 data analysis tools and workflows without the need for programming experie
 nce.\n\nYou may also be interested in our workshops on variant calling in 
 polyploid organisms (e.g animals\, plants\, humans) and viruses. See our [
 events listings](https://www.biocommons.org.au/events) for more informatio
 n on other workshops and events.\n\n**Date/time**: 1-5pm AEST\, Thursday 2
 7 May 2021\n\n**Lead Trainers:** Dr Gareth Price\, and Dr Igor Makunin\, Q
 CIF Bioinformatics.\n\n**Learning outcomes**\n\nThe materials to be covere
 d in the workshop are freely available via the [Galaxy Training Network](h
 ttps://training.galaxyproject.org/training-material/topics/variant-analysi
 s/tutorials/tb-variant-analysis/tutorial.html).\n\nBy the end of the works
 hop you should be able to:\n\n- Detect genetic variation in microbial geno
 mes using Snippy\n- Visualise variants in a genome browser (JBrowse)\n- Us
 e annotations to infer changes to phenotype\n\nThe workshop will NOT provi
 de an introduction to the basics of Galaxy or the use of Galaxy for sequen
 cing analysis (e.g. quality control and mapping). If you would like to lea
 rn about these topics there are several tutorials available via the [Galax
 y Training Network](https://training.galaxyproject.org/training-material/)
 .\n\n**Who the workshop is for**\n\nThis workshop is for Australian resear
 chers who have or will work on variant calling in bacteria as part of thei
 r projects.\n\nTo get the most out of the workshops you must be familiar w
 ith the concepts of variant calling and have some experience with the basi
 cs of using Galaxy Australia such as setting up a history\, uploading data
  and running tools. No programming experience is required.\n\nYou will be 
 required to watch an introductory webinar (either live or recorded) that w
 ill provide an overview of Galaxy Australia and introduce key functionalit
 ies of the service. If you are new to Galaxy we recommend that you work th
 rough the following tutorials in advance: [A short introduction to Galaxy]
 (https://training.galaxyproject.org/training-material/topics/introduction/
 tutorials/galaxy-intro-short/tutorial.html) and [Galaxy 101 for Everyone](
 https://training.galaxyproject.org/training-material/topics/introduction/t
 utorials/galaxy-intro-101-everyone/tutorial.html).\n\n**How to apply**\n\n
 This workshop is free but participation is subject to application with sel
 ection. **_Applications close at 5pm AEST Wednesday 12 May 2021._**\n\nYou
  must be associated with an Australian organisation and provide an appropr
 iate organisational email address for your application to be considered.\n
 \nApplications will be reviewed by the organising committee and all applic
 ants will be informed of the status of their application (successful\, wai
 ting list\, unsuccessful) by Friday 14 May 2021. Successful applicants wil
 l be provided with a Zoom meeting link closer to the date.\n\n**[Apply her
 e](https://biocommons-variants-bacterial.eventbrite.com.au/)**\n\nThis wor
 kshop is presented by the [Australian BioCommons](https://www.biocommons.o
 rg.au/) and [Queensland Cyber Infrastructure Foundation (QCIF)](https://ww
 w.qcif.edu.au/) with the assistance of a network of facilitators from the 
 national [Bioinformatics Training Cooperative](https://www.biocommons.org.
 au/training-cooperative) and [Galaxy Australia](https://usegalaxy.org.au/)
 .\n\nThis event is part of a series of [bioinformatics training events](ht
 tps://www.biocommons.org.au/events). If you'd like to hear when registrati
 ons open for other events\, please [subscribe](https://www.biocommons.org.
 au/subscribe) to Australian BioCommons.
SUMMARY:WORKSHOP: Bacterial variant calling with Galaxy
URL;VALUE=URI:https://www.biocommons.org.au/events/variants-bacteria
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