[{"id":6,"external_id":null,"title":"WORKSHOP: Using Circos in Galaxy Australia","subtitle":"","url":"https://www.biocommons.org.au/events/circos2020","organizer":"Australian BioCommons","description":"An introduction to Circos, its applications \u0026amp; use within Galaxy Australia. This interactive workshop will show you how to select, filter and visualize heterogenous data and create Circos diagrams with line plots, histograms, heatmaps, links and chords using the Galaxy Australia frontend. Practical scenarios such as drawing genome annotations, mutations, alignments and variants will be covered. You will also learn how Circos works under the hood to help you add customizations to its configuration and extend use cases explored in the workshop.\r\n\r\nPresenter Martin Krzywinski works in bioinformatics, data visualization, science communication and the interface of science and art. He applies design, both data and artistic, to assist discovery, explanation and engagement with scientific data and concepts. Martin is the creator of Circos and hive plots and his information graphics have appeared in the New York Times, Wired, Scientific American and covers of numerous books and scientific journals such as Nature and Genome Research. He is a co-author of the Nature Methods Points of View and Points of Significance columns.\r\n\r\n**2-5 pm AEDT / 1-4pm AEST / 11am-2pm AWST**\r\n\r\n**Please make sure you register for your local venue.**\r\n\r\nMartin will lead this hybrid workshop live online and participants will be supported at each venue by trained local facilitators.\r\n\r\n[Hobart - University of Tasmania](https://circos-galaxy-aus-hobart.eventbrite.com.au/)\r\n\r\n[Toowoomba - University of Southern Queensland](https://circos-galaxy-aus-toowoomba.eventbrite.com.au/)\r\n\r\n[Melbourne - Monash University](https://circos-galaxy-aus-monash.eventbrite.com.au/)\r\n\r\n[Melbourne - University of Melbourne](https://circos-galaxy-aus-melbourne.eventbrite.com.au/)\r\n\r\n[Brisbane - University of Queensland / QCIF](https://circos-galaxy-aus-brisbane.eventbrite.com.au/)\r\n\r\n[Perth - University of Western Australia](https://circos-galaxy-aus-perth.eventbrite.com.au/)\r\n\r\n[Canberra - Australian National University](https://circos-galaxy-aus-anu.eventbrite.com.au/)\r\n\r\n_Martin’s participation has been made possible by the support of the Australasian Proteomics Society. He will also participate in the[ Australasian Data Visualisation and Bioinformatics Workshop and Symposium](http://www.australasianproteomics.org.au/25th-annual-lorne-proteomics-symposium-2020/advbs-and-workshop/) in association with the 25th Annual Lorne Proteomics Symposium._","start":"2021-08-03T14:00:00.000Z","end":"2021-08-03T17:00:00.000Z","sponsors":[],"venue":"","city":"Multiple locations","country":"Australia","postcode":"","latitude":null,"longitude":null,"created_at":"2021-06-24T05:25:37.280Z","updated_at":"2021-06-24T05:25:37.280Z","source":"tess","slug":"workshop-using-circos-in-galaxy-australia","content_provider_id":4,"user_id":16,"online":false,"last_scraped":null,"scraper_record":false,"keywords":["Circos","Bioinformatics"],"event_types":[],"target_audience":[],"capacity":null,"eligibility":["expression_of_interest"],"contact":"Melissa Burke melissa@biocommons.org.au","host_institutions":["University of Tasmania","QCIF (University of Queensland)","University of Western Australia"],"prerequisites":"A familiarity with the Galaxy environment is assumed.\r\n\r\n","tech_requirements":"Please bring along:\r\n\r\nyour Galaxy Australia login credentials\r\na WIFI enabled laptop\r\nYou can apply for a free Galaxy Australia account using an Australian university email address here: https://usegalaxy.org.au.","cost_basis":"free","cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]},{"id":19,"external_id":null,"title":"WORKSHOP: Working with genomic sequences and features in R with Bioconductor","subtitle":"","url":"https://www.biocommons.org.au/events/bioconductor-genome","organizer":"Australian BioCommons","description":"This workshop provides hands-on experience with tools, software and packages available in R via Bioconductor for manipulating, exploring and extracting information from biological sequences and annotation files. We will look at tools for working with some commonly used file formats including FASTA, GFF3, GTF, methods for identifying regions of interest, and easy methods for obtaining data packages such as genome assemblies. \r\n\r\n**Date/time:** 10am-1pm AEST, Thursday 23 September 2021\r\n\r\n**Lead Trainer:** Dr Paul Harrison, Monash Bioinformatics Platform\r\n\r\n**Learning outcomes**\r\n\r\nAfter attending this workshop, participants will be able to:\r\n\r\n1. Work with data types in R representing DNA and amino-acid sequences, and genomic ranges (representing things such as genes, transcripts, exons, motif matches, or results of peak-calling).\r\n2. Perform useful operations on genomic ranges such as finding overlaps between two sets of ranges.\r\n3. Load and save data in commonly used file formats, appreciate some of the advantages and disadvantages of different formats.\r\n4. Install Bioconductor packages, find relevant documentation, and be aware of differences between the Bioconductor and base R ways of doing things.\r\n\r\n**Who the workshop is for**\r\n\r\nThis workshop is open to Australian students and researchers who are using Bioconductor to analyse their life science data. It is not suitable for absolute beginners.\r\n\r\nSome familiarity with R is assumed (prospective participants should already be comfortable with[ basic R concepts](https://monashdatafluency.github.io/r-intro-2)).\r\n\r\nParticipants will need to have[ RStudio](https://rstudio.com/products/rstudio/download/) and[ R](https://cran.r-project.org/) ready for use on their laptop.\r\n\r\nParticipants should have used a few Bioconductor packages, perhaps having worked through a tutorial vignette to perform a standard data analysis task. This workshop will assist those who are now interrogating their data in a way that requires going off the beaten path, or perhaps needing to better understand package vignettes mentioning things like \"GRanges\" and \"TxDb\". \r\n","start":"2021-09-23T10:00:00.000Z","end":"2021-09-23T13:00:00.000Z","sponsors":[],"venue":"","city":"","country":"","postcode":"","latitude":null,"longitude":null,"created_at":"2021-08-26T01:00:08.744Z","updated_at":"2021-08-26T01:07:18.270Z","source":"tess","slug":"workshop-working-with-genomic-sequences-and-features-in-r-with-bioconductor","content_provider_id":4,"user_id":16,"online":true,"last_scraped":null,"scraper_record":false,"keywords":["R statistical software","Bioconductor","Bioinformatics"],"event_types":["workshop"],"target_audience":["Biologists","Bioinformaticians"],"capacity":50,"eligibility":["expression_of_interest"],"contact":"Melissa Burke (melissa@biocommons.org.au)","host_institutions":["Australian BioCommons"],"prerequisites":"Some familiarity with R is assumed (prospective participants should already be comfortable with basic R concepts). It is not suitable for absolute beginners.","tech_requirements":"Participants will need to have[ RStudio](https://rstudio.com/products/rstudio/download/) and[ R](https://cran.r-project.org/) ready for use on their laptop.","cost_basis":"free","cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]},{"id":27,"external_id":null,"title":"Test hybrid bioinformatics workshop","subtitle":"","url":"www.biocommons.org.au","organizer":"Australian BioCommons","description":"This workshop will combine online presentations with face to face training in classroom settings","start":"2021-09-27T09:00:00.000Z","end":"2021-09-28T17:00:00.000Z","sponsors":[],"venue":"187 Grattan Street","city":"Carlton","country":"Australia","postcode":"3053","latitude":"-37.80053","longitude":"144.962703","created_at":"2021-08-26T01:24:03.227Z","updated_at":"2021-08-26T01:24:03.227Z","source":"tess","slug":"test-hybrid-bioinformatics-workshop","content_provider_id":4,"user_id":20,"online":false,"last_scraped":null,"scraper_record":false,"keywords":["Bioinformatics"],"event_types":[],"target_audience":["Beginners","Biologists"],"capacity":null,"eligibility":["open_to_all"],"contact":"christina@biocommons.org.au","host_institutions":["University of Melbourne"],"prerequisites":"","tech_requirements":"","cost_basis":"","cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]},{"id":46,"external_id":null,"title":"Panel Discussion: Improve visibility of research software for career advancement","subtitle":null,"url":"https://www.biocommons.org.au/events/bioinfo-software","organizer":"Australian BioCommons","description":"Research software is not only an essential part of doing research, but it is an important research output. The producers of pipelines, workflows and software packages are increasingly being recognised for their contributions. How can you make, share and maintain good research software in a way that will advance your career?\r\n\r\nDo you write code for your research? Are you making these new workflows, pipelines, scripts or computational methods available as software? Do you see your software contributions as a pathway to impact your career? If you answer yes to any of these questions, please join us!\r\n\r\nFor this panel discussion we have invited people who invest a lot of their time, writing, reviewing and maintaining bioinformatics software tools. We will have a wide-ranging discussion on how this benefits researchers and others, the effect on career development, research impact via software and what can be done to increase the recognition for this work.\r\n\r\nThe panel discussion will run for approximately 45 minutes, followed by a Q\u0026amp;A session.\r\n\r\nMC: A/Prof Denis Bauer, Principal Research Scientist, Transformational Bioinformatics, CSIRO\r\n\r\nPanellists:\r\n\r\n1. A/Prof. Kim-Anh Lê Cao, NHMRC Career Development Fellow, School of Mathematics and Statistics, The University of Melbourne\r\n2. Dr Sonika Tyagi, Central Clinical School, Monash University\r\n3. Mr Fred Jaya, School of Life and Environmental Sciences, University of Sydney\r\n4. Professor Gordon Smyth, The Walter and Eliza Hall Institute of Medical Research (WEHI)\r\n\r\n**This event is co-hosted by Australian BioCommons, ABACBS and the ARDC Software Program.**\r\n\r\nIt forms part of the implementation of the ARDC National Research Software Agenda (https://bit.ly/rs-agenda) to make research software more visible, better cited and maintained.\r\n\r\n**Date/time:** 24 February 2022 - 13:00-14:00 AEDT/ 12:00-13:00 AEST / 12:30 - 13:30 ACDT / 10:00-11:00 AWST\r\n\r\n**How to join: **This webinar is free to join but you must [register for a place](https://unimelb.zoom.us/meeting/register/tZ0pcuygqT4pEtCns59vNv-2ra_qjBPiFw_S) in advance.\r\n","start":"2022-02-24T13:00:00.000Z","end":"2022-02-24T14:00:00.000Z","sponsors":[],"venue":"Online","city":"","country":"Australia","postcode":null,"latitude":null,"longitude":null,"created_at":"2022-02-11T14:00:44.413Z","updated_at":"2022-02-24T04:34:14.969Z","source":"tess","slug":"panel-discussion-improve-visibility-of-research-software-for-career-advancement","content_provider_id":4,"user_id":43,"online":true,"last_scraped":"2022-02-24","scraper_record":true,"keywords":["Software engineering","Computational biology","Workflows","Bioinformatics","research software"],"event_types":[],"target_audience":[],"capacity":null,"eligibility":["open_to_all"],"contact":"Melissa Burke (melissa@biocommons.org.au)","host_institutions":["Australian Biocommons","ARDC","ABACBS"],"prerequisites":null,"tech_requirements":null,"cost_basis":null,"cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]},{"id":178,"external_id":null,"title":"WEBINAR: Protection of genomic data and the Australian Privacy Act: when is genomic data ‘personal information’?","subtitle":null,"url":"https://www.biocommons.org.au/events/law-genomic-data","organizer":"Australian BioCommons","description":"It is easy to assume that genomic data will be captured by legal definitions of ‘health information’ and ‘genetic information’, but the legal meaning of ‘genetic information’ need not align with scientific categories.\r\n\r\nThere are many different types of genomic data, with varied characteristics, uses and applications.  Clarifying when genomic data is covered by the Privacy Act 1988 (Cth) is an ongoing evaluative exercise but is important for at least 3 reasons:\r\n\r\n\r\n1. those subject to the Privacy Act need to be able to confidently navigate their responsibilities\r\n2. understanding current controls is a prerequisite for meaningful external critique (and this is particularly important at a time when the Privacy Act is under review), and\r\n3. while legislation that applies to state public sector agencies is generally distinct from the Privacy Act there are similarities that extend the relevance of the question when is genomic data ‘personal information’ under the Privacy Act?\r\n\r\nIn this presentation, Mark will explore the relationship between the legal concept of genetic information and the concept of genomic data relevant to health and medical research, reflect on the characteristics of each, and the possibility of more clearly identifying the legal rights and responsibilities which attach to the use and disclosure of genomic data in the future.\r\n\r\n**Speaker:** Mark Taylor, Professor in Health Law and Regulation, Melbourne Law School; Director, Health, Law and Emerging Technologies (HeLEX), University of Melbourne.\r\n\r\n**How to join:**\r\n\r\nThis webinar is free to join but you must [register for a place in advance](https://unimelb.zoom.us/webinar/register/WN_zC3MlCjAQUq7sTVw8idvLA).\r\n","start":"2022-04-06T12:00:00.000Z","end":"2022-04-06T13:00:00.000Z","sponsors":[],"venue":"","city":"","country":"","postcode":null,"latitude":null,"longitude":null,"created_at":"2022-03-10T14:00:28.940Z","updated_at":"2022-04-05T14:00:12.467Z","source":"tess","slug":"webinar-protection-of-genomic-data-and-the-australian-privacy-act-when-is-genomic-data-personal-information","content_provider_id":4,"user_id":43,"online":true,"last_scraped":"2022-04-05","scraper_record":true,"keywords":["Ethics","Human genomics","Data privacy","Bioinformatics"],"event_types":[],"target_audience":[],"capacity":null,"eligibility":["open_to_all"],"contact":"Melissa Burke (melissa@biocommons.org.au)","host_institutions":["Australian BioCommons"],"prerequisites":null,"tech_requirements":null,"cost_basis":null,"cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]},{"id":179,"external_id":null,"title":"WORKSHOP: R - fundamental skills for biologists","subtitle":null,"url":"https://www.biocommons.org.au/events/fundamental-r","organizer":"Australian BioCommons","description":"Biologists need data analysis skills to be able to interpret, visualise and communicate their research results. While Excel can cover some data analysis needs, there is a better choice, particularly for large and complex datasets. \r\n\r\nR is a free, open-source software and programming language that enables data exploration, statistical analysis, visualisation and more. The large variety of R packages available for analysing biological data make it a robust and flexible option for data of all shapes and sizes. \r\n\r\nGetting started can be a little daunting for those without a background in statistics and programming. In this workshop we will equip you with the foundations for getting the most out of R and RStudio, an interactive way of structuring and keeping track of your work in R. Using biological data from a model of influenza infection, you will learn how to efficiently and reproducibly organise, read, wrangle, analyse, visualise and generate reports from your data in R.\r\n\r\nTopics covered in this workshop include:\r\n\r\n1. Spreadsheets, organising data and first steps with R\r\n2. Manipulating and analysing data with dplyr and joining tables\r\n3. Data visualisation\r\n4. Summarized experiments and getting started with Bioconductor\r\n\r\n**Lead Trainer:** Dr Saskia Freytag (Laboratory Head, Personalised Oncology Division, WEHI)\r\n\r\n**Format**\r\n\r\nThis online workshop will take place over a series of three-hour sessions. You must attend all four sessions in order to get the most out of the workshop. Expert trainers will guide you through each of the topics and provide activities and take home exercises to help you put your new skills into action. Support will be provided via Slack between sessions.\r\n\r\n**Date/time:** 1, 8, 15, and 22 June 2022: 2 - 5pm AEST/ 1:30-4:30pm ACST/ 12-3pm AWST\r\n\r\n1 June 2022: Spreadsheets, organising data and first steps with R\r\n\r\n8 June 2022: Manipulating and analysing data with dplyr and joining tables\r\n\r\n15 June 2022: Data visualisation\r\n\r\n22 June 2022: Summarized experiments and getting started with Bioconductor\r\n\r\nParticipants must attend all four sessions\r\n\r\n**Learning outcomes**\r\n\r\nBy the end of the workshop you should be able to:\r\n\r\n1. Organise your data for effective use\r\n2. Use RStudio to structure your work in R and run R packages\r\n3. Make use of objects, vectors and functions in R\r\n4. Load, inspect and manipulate data in R\r\n5. Use dplyr and tidyr and packages to manipulate and reshape data\r\n6. Produce and customise scatter plots, box plots, line plots, etc. using ggplot\r\n7. Combine data spread across multiple tables\r\n8. Use the SummarizedExperiment package to store and handle omics data\r\n9. Have some familiarity with Bioconductor \r\n10. Identify sources of help and support from the R community\r\n\r\n**Who the workshop is for**\r\n\r\nThis workshop is for Australian life science researchers who are using, or intend to use, R to analyse their data.\r\n\r\nThis workshop is suitable for absolute beginners or those who wish to go back to basics to ensure they are using R and RStudio effectively. No prior knowledge of R is required.\r\n\r\n**How to apply**\r\n\r\nThis workshop is free but participation is subject to application with selection. \r\n\r\nApplications close at **11:59pm AEST Wednesday 11 May 2022**.\r\n\r\nYou must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered.\r\n\r\nApplications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful). Successful applicants will be provided with a Zoom meeting link closer to the date.\r\n\r\n**[Apply here](https://r-fundamentals.eventbrite.com.au/)**\r\n\r\nThis event is part of a series of[ bioinformatics training events](https://www.biocommons.org.au/events). If you'd like to hear when registrations open for other events, please[ subscribe](https://www.biocommons.org.au/subscribe) to Australian BioCommons.","start":"2022-06-01T12:00:00.000Z","end":"2022-06-22T17:00:00.000Z","sponsors":[],"venue":"","city":"","country":"","postcode":null,"latitude":null,"longitude":null,"created_at":"2022-03-10T14:00:29.014Z","updated_at":"2022-05-04T14:00:13.712Z","source":"tess","slug":"workshop-r-fundamental-skills-for-biologists","content_provider_id":4,"user_id":43,"online":true,"last_scraped":"2022-05-04","scraper_record":true,"keywords":["R","RStudio","Bioinformatics","Life science","Data analysis","Data visualisation"],"event_types":[],"target_audience":[],"capacity":null,"eligibility":["expression_of_interest"],"contact":"Melissa Burke (melissa@biocommons.org.au)","host_institutions":["Australian BioCommons"],"prerequisites":null,"tech_requirements":null,"cost_basis":null,"cost_value":null,"scientific_topics":[],"operations":[],"nodes":[]}]