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Authors: Thang, Michael 

WORKSHOP: RNAseq: reads to differential expression

This record includes training materials associated with the Australian BioCommons workshop ‘RNAseq: reads to differential expression’. This workshop took place on 10 - 11 September 2024.
Event description
RNA-Seq is a popular method for measuring differential gene expression. This hands-on...

Keywords: Bioinformatics, Transcriptomics, RNAseq

WORKSHOP: RNAseq: reads to differential expression https://dresa.org.au/materials/workshop-rnaseq-reads-to-differential-expression This record includes training materials associated with the Australian BioCommons workshop ‘RNAseq: reads to differential expression’. This workshop took place on 10 - 11 September 2024. Event description RNA-Seq is a popular method for measuring differential gene expression. This hands-on workshop introduces the concepts of RNA-Seq analysis, from data preparation through to statistical testing for differential gene expression. You’ll learn how to use popular tools and workflows to analyse the data, produce graphical summaries and identify differentially expressed genes. The workshop will focus on the use of Galaxy, a web-based platform for accessible, reproducible, and transparent computational biological research. Widely used by researchers world wide, Galaxy gives you access to 1000’s of popular tools for analysis and processing of biological data. Galaxy Australia is a fully subsidised service provided by Australian BioCommons.  Lead trainer: Mike Thang, Galaxy Australia / QCIF Facilitators: Dr Selene Fernandez Valverde, UNSW Host: Dr Melissa Burke, Australian BioCommons.   Training materials Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event. Files and materials included in this record: Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc. Schedule (PDF): provides a breakdown of the timing of the session. Materials shared elsewhere: The workshop followed the Galaxy Training Network Tutorials: RNAseq: reads to counts RNAseq counts to genes   Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Transcriptomics, RNAseq
WORKSHOP: Phylogenetics: back to basics

This record includes training materials associated with the Australian BioCommons workshop ‘Phylogenetics: Back to basics’’. This workshop took place on 1 July 2024.
Event description
Phylogenetics is essential for comparing biological species and understanding biodiversity for conservation. This...

Keywords: Bioinformatics, Phylogenetics

WORKSHOP: Phylogenetics: back to basics https://dresa.org.au/materials/workshop-phylogenetics-back-to-basics This record includes training materials associated with the Australian BioCommons workshop ‘Phylogenetics: Back to basics’’. This workshop took place on 1 July 2024. Event description Phylogenetics is essential for comparing biological species and understanding biodiversity for conservation. This workshop discusses the basic principles and methods of phylogenetic inference and what you can learn from phylogenetic estimation. It is intended to help you make informed decisions about which methods to use in your research. Using real-life data and standard tools that are (mostly) available in Galaxy, the workshop demonstrates the principles behind a variety of methods used to estimate phylogenetic trees from aligned sequence data or distance data. This is not a "how to" workshop, but is instead aimed at giving you a better understanding of the principles of phylogenetics and how the methods work. Maybe you've even built phylogenetic trees before but want to know more about the principles behind the tools. Lead trainer: Professor Michael Charleston, University of Tasmania Facilitator: Michael Thang, QCIF and Galaxy Austrlaia Host: Dr Melissa Burke, Australian BioCommons.   Training materials Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event. Files and materials included in this record: Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc. Schedule (PDF): provides a breakdown of the timing of the session. Materials shared elsewhere: This workshop follows the tutorial ‘Phylogenetics: back to basics’’ developed by Professor Michael Charleston and available on the Galaxy Training Network. https://training.galaxyproject.org/training-material/topics/evolution/tutorials/abc_intro_phylo/tutorial.html   Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Phylogenetics
WORKSHOP: Online data analysis for biologists

This record includes training materials associated with the Australian BioCommons workshop ‘Online data analysis for biologists’. This workshop took place on 21 August 2024.
Topic description
Galaxy is a web-based platform that lets you conduct accessible, reproducible, and transparent...

Keywords: Bioinformatics, Data analysis, Galaxy

WORKSHOP: Online data analysis for biologists https://dresa.org.au/materials/workshop-online-data-analysis-for-biologists This record includes training materials associated with the Australian BioCommons workshop ‘Online data analysis for biologists’. This workshop took place on 21 August 2024. Topic description Galaxy is a web-based platform that lets you conduct accessible, reproducible, and transparent computational biological research. Widely used by researchers world wide, Galaxy gives you access to 1000’s of popular tools for analysis and processing of biological data. It is perfect for working with a wide range of big and small datasets including genome assembly, annotation, epigenetics, metabolomics, metagenomics, proteomics, statistics, transcriptomics, variant analysis and visualisation. This workshop provides an introduction to using Galaxy and available tools. Using an example dataset, you’ll practice uploading data, choosing and running tools, and viewing the results. We’ll share our top tips for managing your experiments and speeding up your analysis with workflows. Lead trainer: Dr Gareth Price, Galaxy Australia Facilitator: Mike Thang, Galaxy Australia / QCIF Infrastructure provision: Galaxy Australia Host: Dr Melissa Burke, Australian BioCommons   Training Materials Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event. Files and materials included in this record: Event_metadata_Online_data_analysis_for_biologists_210824 (PDF): Information about the event logistics including, description, event URL, learning objectives, prerequisites, technical requirements etc. Schedule_Online_data_analysis_for_biologists_210824 (PDF): Schedule for the workshop providing a breakdown of topics and timings   Materials shared elsewhere: This workshop is based on the Galaxy Training Network tutorial ‘Galaxy basics for everyone’: https://training.galaxyproject.org/training-material/topics/introduction/tutorials/galaxy-intro-101-everyone/tutorial.html A recording of this workshop is available on the Australian BioCommons YouTube Channel: https://www.youtube.com/watch?v=PF39KjOvreM Melissa Burke (melissa@biocommons.org.au) Bioinformatics, Data analysis, Galaxy