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51 event found

Event types: Workshop 

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Content provider: Australian BioCommons  or QCIF 

  • WORKSHOP: Hybrid de novo genome assembly

    7 October 2021

    WORKSHOP: Hybrid de novo genome assembly https://dresa.org.au/events/workshop-hybrid-de-novo-genome-assembly It’s now easier than ever to assemble new reference genomes thanks to hybrid genome assembly approaches which enable research on organisms for which reference genomes were not previously available. These approaches combine the strengths of short (Illumina) and long (PacBio or Nanopore) read technologies, resulting in improved assembly quality. In this workshop we will learn how to create and assess genome assemblies from Illumina and Nanopore reads using data from a _Bacillus Subtilis_ strain. We will demonstrate two hybrid-assembly methods using the tools [Flye](https://github.com/fenderglass/Flye), [Pilon](https://github.com/broadinstitute/pilon/wiki), and [Unicycler](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005595) to perform assembly and subsequent error correction. You will learn how to visualise input read sets and the assemblies produced at each stage and assess the quality of the final assembly. All analyses will be performed using [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 experience. **Date/time:** 2 - 5pm AEDT/ 1 - 4pm AEST/ 1:30 - 4:30pm ACDT/ 11am - 2pm AWST, Thursday 7 October 2021 **Lead Trainer:** Grace Hall, Melbourne Bioinformatics **Learning outcomes** By the end of this workshop you should be able to: 1. Describe how Nanopore and Illumina reads can be used together to produce a high quality assembly 2. Use genome assembly and polishing programs in Galaxy Australia 3. Assess the quality of a genome assembly with and without a reference genome 4. Assemble an unknown, previously undocumented genome to high-quality using Nanopore and Illumina reads The workshop will NOT provide an introduction to the basics of Galaxy. If you would like to learn about this topic there are several tutorials available via the [Galaxy Training Network](https://training.galaxyproject.org/training-material/). **Who the workshop is for** This workshop is for Australian researchers who are or will perform hybrid genome assembly as part of their projects. To get the most out of the workshops you must have experience with the basics of using Galaxy Australia such as setting up a history, uploading data and running tools. It is recommended that you complete the tutorial [Galaxy 101 for Everyone](https://training.galaxyproject.org/training-material/topics/introduction/tutorials/galaxy-intro-101-everyone/tutorial.html). No programming experience is required. **How to apply** This workshop is free but participation is subject to application with selection. **_Applications close at 11:59pm AEST Wednesday 29 September 2021._** You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful) by Friday 1 October 2021. Successful applicants will be provided with a Zoom meeting link closer to the date. **Applications have closed** This workshop is presented by the [Australian BioCommons](https://www.biocommons.org.au/) and [Melbourne Bioinformatics](https://www.melbournebioinformatics.org.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). To hear when registrations open for other events, please[ subscribe](https://www.biocommons.org.au/subscribe) to the Australian BioCommons’ eNewsletter. 2021-10-07 14:00:00 UTC 2021-10-07 17:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] [] workshop expression_of_interest Genome assemblyde novo genome assemblyGalaxy Australia
  • WORKSHOP: Refining genome annotations with Apollo

    17 November 2021

    WORKSHOP: Refining genome annotations with Apollo https://dresa.org.au/events/workshop-refining-genome-annotations-with-apollo Genome annotation is crucial to defining the function of genomic sequences. This process typically involves a round of automated annotation followed by manual curation. Manual curation allows you to visualise your annotations so you can understand what your organism looks like, and then to manually refine these annotations along with any additional data you might have. This process is typically performed collaboratively as part of a team effort. Apollo is a popular tool for facilitating real-time collaborative, manual curation and genome annotation editing. In this workshop we will learn how to use Apollo to refine genome annotations using example data from an _E. coli_ strain. We’ll focus on the basics like getting data into Apollo, viewing evidence tracks, editing and adding structural and functional annotation, visualising the results and collaborating on genome annotations. This workshop will make use of a training instance of the new [Australian Apollo Service](https://apollo-portal.genome.edu.au/). This service enables Australian-based research groups and consortia to access Apollo and host genome assembly and supporting evidence files for free. This service has been made possible by The Australian BioCommons and partners at QCIF and Pawsey. To learn more about the Australian Apollo Service you can [join our webinar](https://www.biocommons.org.au/events/apollo-launch) on 29 September 2021. **Trainers** Dr Anthony Bretaudeau (French National Institute for Agriculture, Food, and Environment), Dr Helena Rasche (Erasmus Medical Center, The Netherlands), Dr Sarah Williams (QCIF), Dr Tiffanie Nelson (Australian BioCommons) **Date/Time** 3-6pm AEDT/ 2-5pm AEST/ 2:30-5:30pm ACDT / 12-3pm AWST, Wednesday 17 Nov 2021 **Learning outcomes** By the end of the workshop you should be able to: 1. Upload data to Apollo 2. Visualise your genome and associated automated annotations 3. Manually annotate genomes after automated annotations have been performed 4. Evaluate and visualise annotated genomic features 5. Use Apollo to collaborate on genome annotation This workshop is based on [training materials](https://training.galaxyproject.org/training-material//topics/genome-annotation/tutorials/apollo/tutorial.html) developed for the Galaxy Training Network and the [Apollo User Guide](https://genomearchitect.readthedocs.io/en/latest/UsersGuide.html#). **Who the workshop is for** This workshop is for Australian researchers who have or will work on genome annotation and manual curation/editing as part of their projects. You should be familiar with the concepts of genome annotation and have, or soon have, genome annotation files that require manual annotation and curation. You do not need access to a personal or institutional instance of Apollo for this workshop. Access to a training instance of the Australian Apollo Service will be provided. **How to apply** This workshop is free but participation is subject to application with selection. **_Applications close at 11:59pm AEDT, Thursday 4 November 2021_**. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful) by Friday 12 November 2021. Successful applicants will be provided with a Zoom meeting link closer to the date. **[Apply here](https://apollo-2021.eventbrite.com.au/)** This workshop is presented by the [Australian BioCommons](https://www.biocommons.org.au/) and [Queensland Cyber Infrastructure Foundation (QCIF)](https://www.qcif.edu.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). This 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 2021-11-17 15:00:00 UTC 2021-11-17 18:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke melissa@biocommons.org.au [] [] workshop expression_of_interest Genome annotationBioinformaticsGenomics
  • WORKSHOP: Introduction to Metabarcoding using Qiime2

    22 February 2022

    WORKSHOP: Introduction to Metabarcoding using Qiime2 https://dresa.org.au/events/workshop-introduction-to-metabarcoding-using-qiime2 Metabarcoding has revolutionized the study of biodiversity science. By combining DNA taxonomy with high-throughput DNA sequencing, it offers the potential to observe a larger diversity in the taxa within a single sample, rapidly expanding the scope of microbial analysis and generating high-quality biodiversity data. This workshop will introduce the topic of metabarcoding and how you can use Qiime2 to analyse 16S data and gain simultaneous identification of all taxa within a sample. Qiime2 is a popular tool used to perform powerful microbiome analysis that can transform your raw data into publication quality visuals and statistics. In this workshop, using example 16S data from the shallow-water marine anemone _E. diaphana_, you will learn how to use this pipeline to run essential steps in microbial analysis including generating taxonomic assignments and phylogenic trees, and performing both alpha- and beta- diversity analysis. **Date/time:** 12 - 5pm AEDT/ 11 - 4pm AEST/ 11:30 - 4:30 ACDT/ 9am - 2pm AWST, Tuesday 22 February 2022 **Lead Trainers:** Dr Ashley Dungan (School of Bioscience, University of Melbourne) and Dr Gayle Philip (Melbourne Bioinformatics) **Learning outcomes** By the end of this workshop you should be able to: 1. Understand data and metadata formats required for Qiime2 2. Use Qiime2 to: 1. Create and interpret sequence quality data 2. Generate taxonomy reports/tables and phylogenic trees based on amplicon sequence variants 3. Compare Alpha and Beta data analysis 4. Develop publication quality graphics and statistics using 16S sequencing data 3. Assess the results to determine the influence of genotype (an intrinsic factor) and environment (an extrinsic factor) on anemone-associated bacterial communities **Who the workshop is for** This workshop is for researchers studying microbiomes as part of their projects. The workshop will be conducted in a Unix environment so basic command line knowledge (e.g. logging in to a remote machine, navigating the directory structure and copy files between the computers) is a prerequisite You should be familiar with the concepts of microbial analysis a however no previous experience with Qiime2 is required. **How to apply** This workshop is free but participation is subject to application with selection. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications close 8 February 2022. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application Successful applicants will be provided with a Zoom meeting link closer to the date. **[Apply here](https://intro-qiime2.eventbrite.com.au/)** This workshop is presented by the[ Australian BioCommons](https://www.biocommons.org.au/) and[ Melbourne Bioinformatics](https://www.melbournebioinformatics.org.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). To hear when registrations open for other events, please[ subscribe](https://www.biocommons.org.au/subscribe) to the Australian BioCommons’ eNewsletter. 2022-02-22 12:00:00 UTC 2022-02-22 17:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] [] 30 workshop expression_of_interest BioinformaticsMicrobiomeMetabarcodingMetagenomics
  • Longitudinal and Mixed Model Analysis with R

    6 April 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-04-06 09:00:00 UTC 2022-04-06 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Unix

    11 - 12 April 2022

    Introduction to Unix https://dresa.org.au/events/introduction-to-unix The Unix shell has been around longer than most of its users have been alive. It has survived so long because it’s a power tool that allows people to do complex things with just a few keystrokes. More importantly, it helps them combine existing programs in new ways and automate repetitive tasks so they aren’t typing the same things over and over again. Use of the shell is fundamental to using a wide range of other powerful tools and computing resources (including 'high-performance computing' supercomputers). This Software Carpentry workshop will start you on a path towards using these resources effectively. 2022-04-11 09:00:00 UTC 2022-04-12 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    12 April 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-04-12 09:00:00 UTC 2022-04-12 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Genome Annotation with Apollo

    21 April 2022

    Genome Annotation with Apollo https://dresa.org.au/events/genome-annotation-with-apollo Genome annotation is crucial to defining the function of genomic sequences. Apollo is a popular tool for facilitating real-time, collaborative, curation and genome annotation editing. In this workshop we'll show you how to use Apollo to refine genome annotations using the Australian Apollo Service. 2022-04-21 09:00:00 UTC 2022-04-21 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: Plotting and Programming with Python

    26 - 29 April 2022

    Introduction to Programming: Plotting and Programming with Python https://dresa.org.au/events/introduction-to-programming-plotting-and-programming-with-python This Software Carpentry workshop will introduce the building blocks of the Python scripting environment. Participants will start by exploring the command-line interface and basic programming concepts using Unix, before moving on to learn about simple and complex data types, conditionals and looping in Python. This workshop will prepare participants to carry out batch analysis and equip them with the knowledge to start creating automated pipelines to increase data processing power and productivity. 2022-04-26 09:00:00 UTC 2022-04-29 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with R

    11 May 2022

    Exploring and Predicting using Linear Regression with R https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-r This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using R, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in R. 2022-05-11 09:00:00 UTC 2022-05-11 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to SPSS

    13 May 2022

    Introduction to SPSS https://dresa.org.au/events/introduction-to-spss This workshop will provide a hands-on introduction to the widely-used SPSS statistical analysis package. Participants will learn how to import, manage and transform datasets, and how to summarise and present data. The workshop will also include a basic introduction to statistical testing using SPSS. 2022-05-13 09:00:00 UTC 2022-05-13 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to HPC

    16 May 2022

    Introduction to HPC https://dresa.org.au/events/introduction-to-hpc High-Performance Computing, or HPC, is the use of computers orders of magnitude faster and more powerful than even the best desktop PC. As research becomes more and more data-intensive, an ever broader range of researchers are using HPC for their data analysis. This workshop will give you an introduction to using high-performance computing systems effectively (as well as their limitations), and will introduce the basics of how to access a HPC cluster, load and use software, and submit jobs to run. 2022-05-16 09:00:00 UTC 2022-05-16 13:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Single-cell RNA-Seq Analysis using Galaxy

    17 May 2022

    Single-cell RNA-Seq Analysis using Galaxy https://dresa.org.au/events/single-cell-rna-seq-analysis-using-galaxy This hands-on workshop will cover the basics of single-cell RNA-Seq analysis, using the Galaxy platform. Starting from a table of gene counts we will evaluate, filter, annotate and visualise the data. We will also cover clustering, cell type identification and differential expression. The workshop will be based in Galaxy, a platform that provides a simple and user-friendly interface to bioinformatics tools. 2022-05-17 09:00:00 UTC 2022-05-17 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Making your Research Data FAIR

    18 May 2022

    Making your Research Data FAIR https://dresa.org.au/events/making-your-research-data-fair Making your Research Data FAIR is a 3-hour workshop aimed at introducing researchers to FAIR (Findable, Accessible, Interoperable and Reusable) principles. During the workshop researchers will reflect on reasons for making their research data FAIR and self-assess on how FAIR their research data is and then learn about resources available for researchers to make their data FAIR. 2022-05-18 09:00:00 UTC 2022-05-18 12:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Introduction to Programming: R for Reproducible Scientific Analysis

    23 - 26 May 2022

    Introduction to Programming: R for Reproducible Scientific Analysis https://dresa.org.au/events/introduction-to-programming-r-for-reproducible-scientific-analysis This Software Carpentry workshop will introduce novice programmers to the R software environment, a powerful, popular and free statistical and graphical programming language. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. The emphasis of this workshop is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into modular units, task automation, and encapsulation. 2022-05-23 09:00:00 UTC 2022-05-26 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • WORKSHOP: R - fundamental skills for biologists

    1 - 22 June 2022

    WORKSHOP: R - fundamental skills for biologists https://dresa.org.au/events/workshop-r-fundamental-skills-for-biologists 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 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. Getting 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. Topics covered in this workshop include: 1. Spreadsheets, organising data and first steps with R 2. Manipulating and analysing data with dplyr and joining tables 3. Data visualisation 4. Summarized experiments and getting started with Bioconductor **Lead Trainer:** Dr Saskia Freytag (Laboratory Head, Personalised Oncology Division, WEHI) **Format** This 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. **Date/time:** 1, 8, 15, and 22 June 2022: 2 - 5pm AEST/ 1:30-4:30pm ACST/ 12-3pm AWST 1 June 2022: Spreadsheets, organising data and first steps with R 8 June 2022: Manipulating and analysing data with dplyr and joining tables 15 June 2022: Data visualisation 22 June 2022: Summarized experiments and getting started with Bioconductor Participants must attend all four sessions **Learning outcomes** By the end of the workshop you should be able to: 1. Organise your data for effective use 2. Use RStudio to structure your work in R and run R packages 3. Make use of objects, vectors and functions in R 4. Load, inspect and manipulate data in R 5. Use dplyr and tidyr and packages to manipulate and reshape data 6. Produce and customise scatter plots, box plots, line plots, etc. using ggplot 7. Combine data spread across multiple tables 8. Use the SummarizedExperiment package to store and handle omics data 9. Have some familiarity with Bioconductor 10. Identify sources of help and support from the R community **Who the workshop is for** This workshop is for Australian life science researchers who are using, or intend to use, R to analyse their data. This 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. **How to apply** This workshop is free but participation is subject to application with selection. Applications close at **11:59pm AEST Wednesday 11 May 2022**. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications 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. **[Apply here](https://r-fundamentals.eventbrite.com.au/)** This 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. 2022-06-01 12:00:00 UTC 2022-06-22 17:00:00 UTC Australian BioCommons Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] Life scientists 50 workshop expression_of_interest RRStudioBioinformaticsLife scienceData analysisData visualisation
  • Statistical Comparisons using SPSS

    6 June 2022

    Statistical Comparisons using SPSS https://dresa.org.au/events/statistical-comparisons-using-spss This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in SPSS. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-06-06 09:00:00 UTC 2022-06-06 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Longitudinal and Mixed Model Analysis with R

    9 June 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r-33c3cd7d-3991-4056-a363-6b33560de5ef This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-06-09 09:00:00 UTC 2022-06-09 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    14 June 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r-0193b73f-58db-433b-bdf6-958245487b21 This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-06-14 09:00:00 UTC 2022-06-14 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Metagenomics Analysis using Galaxy

    15 June 2022

    Metagenomics Analysis using Galaxy https://dresa.org.au/events/metagenomics-analysis-using-galaxy This workshop will cover the concepts of 16S bacterial metagenomics analysis. You will learn about pre-processing and quality-filtering of your data, assembly of reads into Operational Taxonomic Units (OTUs), and visualisation and export of data for further analysis. The workshop will be based in Galaxy, a platform that provides a simple and user-friendly interface to bioinformatics tools. 2022-06-15 09:00:00 UTC 2022-06-15 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Reproducible Research

    17 June 2022

    Introduction to Reproducible Research https://dresa.org.au/events/introduction-to-reproducible-research An Introduction to Reproducible Research is a 3-hour workshop aimed at introducing researchers to concepts, tools and practices to make their research workflows, data and results reproducible. The workshop challenges participants to use available tools and existing support to increase their research impact, quality and reproducibility through traditional and non-traditional outputs. 2022-06-17 09:00:00 UTC 2022-06-17 12:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Introduction to Unix

    20 - 21 June 2022

    Introduction to Unix https://dresa.org.au/events/introduction-to-unix-82f288d1-d9d6-46ae-b307-f342c72ff22a The Unix shell has been around longer than most of its users have been alive. It has survived so long because it’s a power tool that allows people to do complex things with just a few keystrokes. More importantly, it helps them combine existing programs in new ways and automate repetitive tasks so they aren’t typing the same things over and over again. Use of the shell is fundamental to using a wide range of other powerful tools and computing resources (including 'high-performance computing' supercomputers). This Software Carpentry workshop will start you on a path towards using these resources effectively. 2022-06-20 09:00:00 UTC 2022-06-21 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: Plotting and Programming with Python

    27 - 30 June 2022

    Introduction to Programming: Plotting and Programming with Python https://dresa.org.au/events/introduction-to-programming-plotting-and-programming-with-python-990762e4-782c-46a2-837a-76125021efaa This Software Carpentry workshop will introduce the building blocks of the Python scripting environment. Participants will start by exploring the command-line interface and basic programming concepts using Unix, before moving on to learn about simple and complex data types, conditionals and looping in Python. This workshop will prepare participants to carry out batch analysis and equip them with the knowledge to start creating automated pipelines to increase data processing power and productivity. 2022-06-27 09:00:00 UTC 2022-06-30 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with R

    5 July 2022

    Exploring and Predicting using Linear Regression with R https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-r-05d8c907-c4e8-4b2f-9b44-c685dfce3df3 This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using R, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in R. 2022-07-05 09:00:00 UTC 2022-07-05 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Version Control with Git

    11 July 2022

    Version Control with Git https://dresa.org.au/events/version-control-with-git Version control is the lab notebook of the digital world: it’s what professionals use to keep track of what they’ve done and to collaborate with other people. Every large software development project relies on it, and most programmers use it for their small jobs as well. And it isn’t just for software: books, papers, small data sets, and anything that changes over time or needs to be shared can and should be stored in a version control system. 2022-07-11 09:00:00 UTC 2022-07-11 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    14 July 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r-eb70d050-c86f-45d8-9871-9b61351f9cc8 This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-07-14 09:00:00 UTC 2022-07-14 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with SPSS

    20 July 2022

    Exploring and Predicting using Linear Regression with SPSS https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-spss This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using SPSS, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in SPSS. 2022-07-20 09:00:00 UTC 2022-07-20 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • An Introduction to NGS Platforms and Bioinformatics Analysis

    21 July 2022

    An Introduction to NGS Platforms and Bioinformatics Analysis https://dresa.org.au/events/an-introduction-to-ngs-platforms-and-bioinformatics-analysis This hands-on practical workshop is an introduction to next generation sequencing technologies and how they work, providers, common bioinformatics workflows, standardised file types, quality control and an introduction to Galaxy Australia. No prior experience of using Galaxy is required. 2022-07-21 09:00:00 UTC 2022-07-21 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: R for Reproducible Scientific Analysis

    25 - 28 July 2022

    Introduction to Programming: R for Reproducible Scientific Analysis https://dresa.org.au/events/introduction-to-programming-r-for-reproducible-scientific-analysis-13b9b815-25d3-4802-8d33-ed6c0beac6a8 This Software Carpentry workshop will introduce novice programmers to the R software environment, a powerful, popular and free statistical and graphical programming language. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. The emphasis of this workshop is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into modular units, task automation, and encapsulation. 2022-07-25 09:00:00 UTC 2022-07-28 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Longitudinal and Mixed Model Analysis with R

    2 August 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r-63caaa70-a885-4209-9657-14ba93aa9263 This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-08-02 09:00:00 UTC 2022-08-02 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to SPSS

    8 August 2022

    Introduction to SPSS https://dresa.org.au/events/introduction-to-spss-2b6dc3f5-adcf-43e6-b54b-fe464c745d8e This workshop will provide a hands-on introduction to the widely-used SPSS statistical analysis package. Participants will learn how to import, manage and transform datasets, and how to summarise and present data. The workshop will also include a basic introduction to statistical testing using SPSS. 2022-08-08 09:00:00 UTC 2022-08-08 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • WORKSHOP: Hybrid de novo genome assembly

    7 October 2021

    WORKSHOP: Hybrid de novo genome assembly https://dresa.org.au/events/workshop-hybrid-de-novo-genome-assembly It’s now easier than ever to assemble new reference genomes thanks to hybrid genome assembly approaches which enable research on organisms for which reference genomes were not previously available. These approaches combine the strengths of short (Illumina) and long (PacBio or Nanopore) read technologies, resulting in improved assembly quality. In this workshop we will learn how to create and assess genome assemblies from Illumina and Nanopore reads using data from a _Bacillus Subtilis_ strain. We will demonstrate two hybrid-assembly methods using the tools [Flye](https://github.com/fenderglass/Flye), [Pilon](https://github.com/broadinstitute/pilon/wiki), and [Unicycler](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005595) to perform assembly and subsequent error correction. You will learn how to visualise input read sets and the assemblies produced at each stage and assess the quality of the final assembly. All analyses will be performed using [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 experience. **Date/time:** 2 - 5pm AEDT/ 1 - 4pm AEST/ 1:30 - 4:30pm ACDT/ 11am - 2pm AWST, Thursday 7 October 2021 **Lead Trainer:** Grace Hall, Melbourne Bioinformatics **Learning outcomes** By the end of this workshop you should be able to: 1. Describe how Nanopore and Illumina reads can be used together to produce a high quality assembly 2. Use genome assembly and polishing programs in Galaxy Australia 3. Assess the quality of a genome assembly with and without a reference genome 4. Assemble an unknown, previously undocumented genome to high-quality using Nanopore and Illumina reads The workshop will NOT provide an introduction to the basics of Galaxy. If you would like to learn about this topic there are several tutorials available via the [Galaxy Training Network](https://training.galaxyproject.org/training-material/). **Who the workshop is for** This workshop is for Australian researchers who are or will perform hybrid genome assembly as part of their projects. To get the most out of the workshops you must have experience with the basics of using Galaxy Australia such as setting up a history, uploading data and running tools. It is recommended that you complete the tutorial [Galaxy 101 for Everyone](https://training.galaxyproject.org/training-material/topics/introduction/tutorials/galaxy-intro-101-everyone/tutorial.html). No programming experience is required. **How to apply** This workshop is free but participation is subject to application with selection. **_Applications close at 11:59pm AEST Wednesday 29 September 2021._** You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful) by Friday 1 October 2021. Successful applicants will be provided with a Zoom meeting link closer to the date. **Applications have closed** This workshop is presented by the [Australian BioCommons](https://www.biocommons.org.au/) and [Melbourne Bioinformatics](https://www.melbournebioinformatics.org.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). To hear when registrations open for other events, please[ subscribe](https://www.biocommons.org.au/subscribe) to the Australian BioCommons’ eNewsletter. 2021-10-07 14:00:00 UTC 2021-10-07 17:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] [] workshop expression_of_interest Genome assemblyde novo genome assemblyGalaxy Australia
  • WORKSHOP: Refining genome annotations with Apollo

    17 November 2021

    WORKSHOP: Refining genome annotations with Apollo https://dresa.org.au/events/workshop-refining-genome-annotations-with-apollo Genome annotation is crucial to defining the function of genomic sequences. This process typically involves a round of automated annotation followed by manual curation. Manual curation allows you to visualise your annotations so you can understand what your organism looks like, and then to manually refine these annotations along with any additional data you might have. This process is typically performed collaboratively as part of a team effort. Apollo is a popular tool for facilitating real-time collaborative, manual curation and genome annotation editing. In this workshop we will learn how to use Apollo to refine genome annotations using example data from an _E. coli_ strain. We’ll focus on the basics like getting data into Apollo, viewing evidence tracks, editing and adding structural and functional annotation, visualising the results and collaborating on genome annotations. This workshop will make use of a training instance of the new [Australian Apollo Service](https://apollo-portal.genome.edu.au/). This service enables Australian-based research groups and consortia to access Apollo and host genome assembly and supporting evidence files for free. This service has been made possible by The Australian BioCommons and partners at QCIF and Pawsey. To learn more about the Australian Apollo Service you can [join our webinar](https://www.biocommons.org.au/events/apollo-launch) on 29 September 2021. **Trainers** Dr Anthony Bretaudeau (French National Institute for Agriculture, Food, and Environment), Dr Helena Rasche (Erasmus Medical Center, The Netherlands), Dr Sarah Williams (QCIF), Dr Tiffanie Nelson (Australian BioCommons) **Date/Time** 3-6pm AEDT/ 2-5pm AEST/ 2:30-5:30pm ACDT / 12-3pm AWST, Wednesday 17 Nov 2021 **Learning outcomes** By the end of the workshop you should be able to: 1. Upload data to Apollo 2. Visualise your genome and associated automated annotations 3. Manually annotate genomes after automated annotations have been performed 4. Evaluate and visualise annotated genomic features 5. Use Apollo to collaborate on genome annotation This workshop is based on [training materials](https://training.galaxyproject.org/training-material//topics/genome-annotation/tutorials/apollo/tutorial.html) developed for the Galaxy Training Network and the [Apollo User Guide](https://genomearchitect.readthedocs.io/en/latest/UsersGuide.html#). **Who the workshop is for** This workshop is for Australian researchers who have or will work on genome annotation and manual curation/editing as part of their projects. You should be familiar with the concepts of genome annotation and have, or soon have, genome annotation files that require manual annotation and curation. You do not need access to a personal or institutional instance of Apollo for this workshop. Access to a training instance of the Australian Apollo Service will be provided. **How to apply** This workshop is free but participation is subject to application with selection. **_Applications close at 11:59pm AEDT, Thursday 4 November 2021_**. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful) by Friday 12 November 2021. Successful applicants will be provided with a Zoom meeting link closer to the date. **[Apply here](https://apollo-2021.eventbrite.com.au/)** This workshop is presented by the [Australian BioCommons](https://www.biocommons.org.au/) and [Queensland Cyber Infrastructure Foundation (QCIF)](https://www.qcif.edu.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). This 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 2021-11-17 15:00:00 UTC 2021-11-17 18:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke melissa@biocommons.org.au [] [] workshop expression_of_interest Genome annotationBioinformaticsGenomics
  • WORKSHOP: Introduction to Metabarcoding using Qiime2

    22 February 2022

    WORKSHOP: Introduction to Metabarcoding using Qiime2 https://dresa.org.au/events/workshop-introduction-to-metabarcoding-using-qiime2 Metabarcoding has revolutionized the study of biodiversity science. By combining DNA taxonomy with high-throughput DNA sequencing, it offers the potential to observe a larger diversity in the taxa within a single sample, rapidly expanding the scope of microbial analysis and generating high-quality biodiversity data. This workshop will introduce the topic of metabarcoding and how you can use Qiime2 to analyse 16S data and gain simultaneous identification of all taxa within a sample. Qiime2 is a popular tool used to perform powerful microbiome analysis that can transform your raw data into publication quality visuals and statistics. In this workshop, using example 16S data from the shallow-water marine anemone _E. diaphana_, you will learn how to use this pipeline to run essential steps in microbial analysis including generating taxonomic assignments and phylogenic trees, and performing both alpha- and beta- diversity analysis. **Date/time:** 12 - 5pm AEDT/ 11 - 4pm AEST/ 11:30 - 4:30 ACDT/ 9am - 2pm AWST, Tuesday 22 February 2022 **Lead Trainers:** Dr Ashley Dungan (School of Bioscience, University of Melbourne) and Dr Gayle Philip (Melbourne Bioinformatics) **Learning outcomes** By the end of this workshop you should be able to: 1. Understand data and metadata formats required for Qiime2 2. Use Qiime2 to: 1. Create and interpret sequence quality data 2. Generate taxonomy reports/tables and phylogenic trees based on amplicon sequence variants 3. Compare Alpha and Beta data analysis 4. Develop publication quality graphics and statistics using 16S sequencing data 3. Assess the results to determine the influence of genotype (an intrinsic factor) and environment (an extrinsic factor) on anemone-associated bacterial communities **Who the workshop is for** This workshop is for researchers studying microbiomes as part of their projects. The workshop will be conducted in a Unix environment so basic command line knowledge (e.g. logging in to a remote machine, navigating the directory structure and copy files between the computers) is a prerequisite You should be familiar with the concepts of microbial analysis a however no previous experience with Qiime2 is required. **How to apply** This workshop is free but participation is subject to application with selection. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications close 8 February 2022. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application Successful applicants will be provided with a Zoom meeting link closer to the date. **[Apply here](https://intro-qiime2.eventbrite.com.au/)** This workshop is presented by the[ Australian BioCommons](https://www.biocommons.org.au/) and[ Melbourne Bioinformatics](https://www.melbournebioinformatics.org.au/) with the assistance of a network of facilitators from the national[ Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). To hear when registrations open for other events, please[ subscribe](https://www.biocommons.org.au/subscribe) to the Australian BioCommons’ eNewsletter. 2022-02-22 12:00:00 UTC 2022-02-22 17:00:00 UTC Australian BioCommons Online, Australia Online Australia Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] [] 30 workshop expression_of_interest BioinformaticsMicrobiomeMetabarcodingMetagenomics
  • Longitudinal and Mixed Model Analysis with R

    6 April 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-04-06 09:00:00 UTC 2022-04-06 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Unix

    11 - 12 April 2022

    Introduction to Unix https://dresa.org.au/events/introduction-to-unix The Unix shell has been around longer than most of its users have been alive. It has survived so long because it’s a power tool that allows people to do complex things with just a few keystrokes. More importantly, it helps them combine existing programs in new ways and automate repetitive tasks so they aren’t typing the same things over and over again. Use of the shell is fundamental to using a wide range of other powerful tools and computing resources (including 'high-performance computing' supercomputers). This Software Carpentry workshop will start you on a path towards using these resources effectively. 2022-04-11 09:00:00 UTC 2022-04-12 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    12 April 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-04-12 09:00:00 UTC 2022-04-12 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Genome Annotation with Apollo

    21 April 2022

    Genome Annotation with Apollo https://dresa.org.au/events/genome-annotation-with-apollo Genome annotation is crucial to defining the function of genomic sequences. Apollo is a popular tool for facilitating real-time, collaborative, curation and genome annotation editing. In this workshop we'll show you how to use Apollo to refine genome annotations using the Australian Apollo Service. 2022-04-21 09:00:00 UTC 2022-04-21 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: Plotting and Programming with Python

    26 - 29 April 2022

    Introduction to Programming: Plotting and Programming with Python https://dresa.org.au/events/introduction-to-programming-plotting-and-programming-with-python This Software Carpentry workshop will introduce the building blocks of the Python scripting environment. Participants will start by exploring the command-line interface and basic programming concepts using Unix, before moving on to learn about simple and complex data types, conditionals and looping in Python. This workshop will prepare participants to carry out batch analysis and equip them with the knowledge to start creating automated pipelines to increase data processing power and productivity. 2022-04-26 09:00:00 UTC 2022-04-29 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with R

    11 May 2022

    Exploring and Predicting using Linear Regression with R https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-r This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using R, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in R. 2022-05-11 09:00:00 UTC 2022-05-11 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to SPSS

    13 May 2022

    Introduction to SPSS https://dresa.org.au/events/introduction-to-spss This workshop will provide a hands-on introduction to the widely-used SPSS statistical analysis package. Participants will learn how to import, manage and transform datasets, and how to summarise and present data. The workshop will also include a basic introduction to statistical testing using SPSS. 2022-05-13 09:00:00 UTC 2022-05-13 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to HPC

    16 May 2022

    Introduction to HPC https://dresa.org.au/events/introduction-to-hpc High-Performance Computing, or HPC, is the use of computers orders of magnitude faster and more powerful than even the best desktop PC. As research becomes more and more data-intensive, an ever broader range of researchers are using HPC for their data analysis. This workshop will give you an introduction to using high-performance computing systems effectively (as well as their limitations), and will introduce the basics of how to access a HPC cluster, load and use software, and submit jobs to run. 2022-05-16 09:00:00 UTC 2022-05-16 13:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Single-cell RNA-Seq Analysis using Galaxy

    17 May 2022

    Single-cell RNA-Seq Analysis using Galaxy https://dresa.org.au/events/single-cell-rna-seq-analysis-using-galaxy This hands-on workshop will cover the basics of single-cell RNA-Seq analysis, using the Galaxy platform. Starting from a table of gene counts we will evaluate, filter, annotate and visualise the data. We will also cover clustering, cell type identification and differential expression. The workshop will be based in Galaxy, a platform that provides a simple and user-friendly interface to bioinformatics tools. 2022-05-17 09:00:00 UTC 2022-05-17 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Making your Research Data FAIR

    18 May 2022

    Making your Research Data FAIR https://dresa.org.au/events/making-your-research-data-fair Making your Research Data FAIR is a 3-hour workshop aimed at introducing researchers to FAIR (Findable, Accessible, Interoperable and Reusable) principles. During the workshop researchers will reflect on reasons for making their research data FAIR and self-assess on how FAIR their research data is and then learn about resources available for researchers to make their data FAIR. 2022-05-18 09:00:00 UTC 2022-05-18 12:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Introduction to Programming: R for Reproducible Scientific Analysis

    23 - 26 May 2022

    Introduction to Programming: R for Reproducible Scientific Analysis https://dresa.org.au/events/introduction-to-programming-r-for-reproducible-scientific-analysis This Software Carpentry workshop will introduce novice programmers to the R software environment, a powerful, popular and free statistical and graphical programming language. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. The emphasis of this workshop is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into modular units, task automation, and encapsulation. 2022-05-23 09:00:00 UTC 2022-05-26 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • WORKSHOP: R - fundamental skills for biologists

    1 - 22 June 2022

    WORKSHOP: R - fundamental skills for biologists https://dresa.org.au/events/workshop-r-fundamental-skills-for-biologists 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 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. Getting 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. Topics covered in this workshop include: 1. Spreadsheets, organising data and first steps with R 2. Manipulating and analysing data with dplyr and joining tables 3. Data visualisation 4. Summarized experiments and getting started with Bioconductor **Lead Trainer:** Dr Saskia Freytag (Laboratory Head, Personalised Oncology Division, WEHI) **Format** This 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. **Date/time:** 1, 8, 15, and 22 June 2022: 2 - 5pm AEST/ 1:30-4:30pm ACST/ 12-3pm AWST 1 June 2022: Spreadsheets, organising data and first steps with R 8 June 2022: Manipulating and analysing data with dplyr and joining tables 15 June 2022: Data visualisation 22 June 2022: Summarized experiments and getting started with Bioconductor Participants must attend all four sessions **Learning outcomes** By the end of the workshop you should be able to: 1. Organise your data for effective use 2. Use RStudio to structure your work in R and run R packages 3. Make use of objects, vectors and functions in R 4. Load, inspect and manipulate data in R 5. Use dplyr and tidyr and packages to manipulate and reshape data 6. Produce and customise scatter plots, box plots, line plots, etc. using ggplot 7. Combine data spread across multiple tables 8. Use the SummarizedExperiment package to store and handle omics data 9. Have some familiarity with Bioconductor 10. Identify sources of help and support from the R community **Who the workshop is for** This workshop is for Australian life science researchers who are using, or intend to use, R to analyse their data. This 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. **How to apply** This workshop is free but participation is subject to application with selection. Applications close at **11:59pm AEST Wednesday 11 May 2022**. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications 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. **[Apply here](https://r-fundamentals.eventbrite.com.au/)** This 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. 2022-06-01 12:00:00 UTC 2022-06-22 17:00:00 UTC Australian BioCommons Australian BioCommons Melissa Burke (melissa@biocommons.org.au) [] Life scientists 50 workshop expression_of_interest RRStudioBioinformaticsLife scienceData analysisData visualisation
  • Statistical Comparisons using SPSS

    6 June 2022

    Statistical Comparisons using SPSS https://dresa.org.au/events/statistical-comparisons-using-spss This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in SPSS. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-06-06 09:00:00 UTC 2022-06-06 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Longitudinal and Mixed Model Analysis with R

    9 June 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r-33c3cd7d-3991-4056-a363-6b33560de5ef This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-06-09 09:00:00 UTC 2022-06-09 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    14 June 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r-0193b73f-58db-433b-bdf6-958245487b21 This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-06-14 09:00:00 UTC 2022-06-14 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Metagenomics Analysis using Galaxy

    15 June 2022

    Metagenomics Analysis using Galaxy https://dresa.org.au/events/metagenomics-analysis-using-galaxy This workshop will cover the concepts of 16S bacterial metagenomics analysis. You will learn about pre-processing and quality-filtering of your data, assembly of reads into Operational Taxonomic Units (OTUs), and visualisation and export of data for further analysis. The workshop will be based in Galaxy, a platform that provides a simple and user-friendly interface to bioinformatics tools. 2022-06-15 09:00:00 UTC 2022-06-15 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Reproducible Research

    17 June 2022

    Introduction to Reproducible Research https://dresa.org.au/events/introduction-to-reproducible-research An Introduction to Reproducible Research is a 3-hour workshop aimed at introducing researchers to concepts, tools and practices to make their research workflows, data and results reproducible. The workshop challenges participants to use available tools and existing support to increase their research impact, quality and reproducibility through traditional and non-traditional outputs. 2022-06-17 09:00:00 UTC 2022-06-17 12:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop host_institution []
  • Introduction to Unix

    20 - 21 June 2022

    Introduction to Unix https://dresa.org.au/events/introduction-to-unix-82f288d1-d9d6-46ae-b307-f342c72ff22a The Unix shell has been around longer than most of its users have been alive. It has survived so long because it’s a power tool that allows people to do complex things with just a few keystrokes. More importantly, it helps them combine existing programs in new ways and automate repetitive tasks so they aren’t typing the same things over and over again. Use of the shell is fundamental to using a wide range of other powerful tools and computing resources (including 'high-performance computing' supercomputers). This Software Carpentry workshop will start you on a path towards using these resources effectively. 2022-06-20 09:00:00 UTC 2022-06-21 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: Plotting and Programming with Python

    27 - 30 June 2022

    Introduction to Programming: Plotting and Programming with Python https://dresa.org.au/events/introduction-to-programming-plotting-and-programming-with-python-990762e4-782c-46a2-837a-76125021efaa This Software Carpentry workshop will introduce the building blocks of the Python scripting environment. Participants will start by exploring the command-line interface and basic programming concepts using Unix, before moving on to learn about simple and complex data types, conditionals and looping in Python. This workshop will prepare participants to carry out batch analysis and equip them with the knowledge to start creating automated pipelines to increase data processing power and productivity. 2022-06-27 09:00:00 UTC 2022-06-30 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with R

    5 July 2022

    Exploring and Predicting using Linear Regression with R https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-r-05d8c907-c4e8-4b2f-9b44-c685dfce3df3 This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using R, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in R. 2022-07-05 09:00:00 UTC 2022-07-05 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Version Control with Git

    11 July 2022

    Version Control with Git https://dresa.org.au/events/version-control-with-git Version control is the lab notebook of the digital world: it’s what professionals use to keep track of what they’ve done and to collaborate with other people. Every large software development project relies on it, and most programmers use it for their small jobs as well. And it isn’t just for software: books, papers, small data sets, and anything that changes over time or needs to be shared can and should be stored in a version control system. 2022-07-11 09:00:00 UTC 2022-07-11 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Statistical Comparisons using R

    14 July 2022

    Statistical Comparisons using R https://dresa.org.au/events/statistical-comparisons-using-r-eb70d050-c86f-45d8-9871-9b61351f9cc8 This practical workshop will help participants to choose and use the appropriate standard statistical test for their data by introducing key concepts of inferential statistics in R. Participants will learn how to compute and interpret hypothesis tests for popular statistical models such as correlation, contingency tables, chi-square test, t-test and ANOVA. 2022-07-14 09:00:00 UTC 2022-07-14 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Exploring and Predicting using Linear Regression with SPSS

    20 July 2022

    Exploring and Predicting using Linear Regression with SPSS https://dresa.org.au/events/exploring-and-predicting-using-linear-regression-with-spss This workshop is designed to increase participants understanding of statistical relationships between data. It introduces principles and methods of regression models using SPSS, and how to interpret relationships between variables. The course covers basic principles of regression methods through to interpreting the output of statistical analyses, and also includes practical sessions giving hands-on experience with regression analysis in SPSS. 2022-07-20 09:00:00 UTC 2022-07-20 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • An Introduction to NGS Platforms and Bioinformatics Analysis

    21 July 2022

    An Introduction to NGS Platforms and Bioinformatics Analysis https://dresa.org.au/events/an-introduction-to-ngs-platforms-and-bioinformatics-analysis This hands-on practical workshop is an introduction to next generation sequencing technologies and how they work, providers, common bioinformatics workflows, standardised file types, quality control and an introduction to Galaxy Australia. No prior experience of using Galaxy is required. 2022-07-21 09:00:00 UTC 2022-07-21 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to Programming: R for Reproducible Scientific Analysis

    25 - 28 July 2022

    Introduction to Programming: R for Reproducible Scientific Analysis https://dresa.org.au/events/introduction-to-programming-r-for-reproducible-scientific-analysis-13b9b815-25d3-4802-8d33-ed6c0beac6a8 This Software Carpentry workshop will introduce novice programmers to the R software environment, a powerful, popular and free statistical and graphical programming language. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. The emphasis of this workshop is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into modular units, task automation, and encapsulation. 2022-07-25 09:00:00 UTC 2022-07-28 12:30:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Longitudinal and Mixed Model Analysis with R

    2 August 2022

    Longitudinal and Mixed Model Analysis with R https://dresa.org.au/events/longitudinal-and-mixed-model-analysis-with-r-63caaa70-a885-4209-9657-14ba93aa9263 This workshop will develop participants’ understanding of the principles, methods, and interpretation of statistical models for longitudinal data (i.e. repeated measures over time) using R. The course will cover the principles of Linear Mixed Models from simple models to more complex ones and includes practical sessions getting hands-on experience of longitudinal analysis in R. 2022-08-02 09:00:00 UTC 2022-08-02 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []
  • Introduction to SPSS

    8 August 2022

    Introduction to SPSS https://dresa.org.au/events/introduction-to-spss-2b6dc3f5-adcf-43e6-b54b-fe464c745d8e This workshop will provide a hands-on introduction to the widely-used SPSS statistical analysis package. Participants will learn how to import, manage and transform datasets, and how to summarise and present data. The workshop will also include a basic introduction to statistical testing using SPSS. 2022-08-08 09:00:00 UTC 2022-08-08 17:00:00 UTC QCIF QCIF training@qcif.edu.au [] [] workshop open_to_all []

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