TRAINING & EVENTS
Upcoming events
Event types listed:
Events organised by the ACCS Project
Events organised by ACCS Project partners
External conferences, seminars (online and in-person) and workshops that are of interest to imaging scientists and their community
ImagingTools is pleased to promote both our own and other events, training and workshops that may benefit our community.
To advertise your activity with ImagingTools, please contact us.
PITSCHI: A FAIR dataset management solution for CMM scientific instruments
Join us to learn about scientific data management, FAIR principles, and your data handling at the Centre for Microscopy and Microanalysis (CMM) at The University of Queensland.
Weekly event
About
Run on a weekly basis, this event helps connect the dots between the research data life cycle from your research and data generated at CMM and how to use PITSCHI in your workflow i.e. how to save data directly in your or your group’s project RDM collections from CMM instruments. We’ll address any questions and/or help you integrate your UQRDM collections with PITSCHI.
What is PITSCHI?
Particle Imaging depoT using Storage caCHing Infrastructure (PITSCHI) is a data repository for the Centre for Microscopy and Microanalysis developed and established with UQ’s partner RCC and digital services. We plan to roll out PITSCHI on all CMM data acquisition instruments. The benefit for users is your data will be copied and hosted in your “own research RDM”. So, there won’t be any worries of data transfer/loss etc. An 8-month test phase has proven its functionality and ease of use.
To use PITSCHI workflow, each user needs to set up a project UQRDM collection (new or existing) to save data in your project RDM collections directly from the instrument. PITSCHI will offer, once data and metadata are transferred and extracted, to use a Web browser to navigate through your experiments and datasets, and it allows you to start data/image processing software on our high-performance computing (HPC) clusters directly out of PITSCHI. Over the years, we will enrich your datasets with more metadata, which is your research and UQ's asset.
Program:
Introduction to PITSCHI
What’s offered and the implemented data workflow.
A demonstration: How to use it on CMM instruments.
Data processing using UQ HPCs
Questions
What do we need from you?
If you have an existing UQRDM collection (Q-collection):
You can use it for your CMM project only if:
It is linked to your CMM project registered in RIMS.
It is mountable to HPCs at UQ (so-called Q-collection).
If yes, please do the following:
Please add pitschi@uq.edu.au as a collaborator in the RDM.
Please send the UQRDM collection number to cmm-support@uq.edu.au.
If you do not have any UQRDM collection:
If you do not have a UQRDM collection that meets the above requirements, you need to create a new one and do the following:
Please add pitschi@uq.edu.au as a collaborator in the RDM.
Please send the UQRDM collection number to cmm-support@uq.edu.au.
Have any questions or suggestions about the weekly “PITSCHI” sessions/ training?
We'd love to hear about it – please send an email to pitschi@uq.edu.au.
After registering, you will receive a confirmation email containing information about joining the meeting.
Note: This is a weekly event happening every Friday at 09:00 am Brisbane – only for CMM Staff and researchers using CMM facility at the university of Queensland.
Event details
Date
24 Nov 2023
Time
9:00 am – 10:00 am (AEST)
Location
online event
Host organisation
Centre for Microscopy and Microanalysis (CMM)
Optimisation and automation of microscopy workflows for near-real-time data assessment and visualisation
Join us on June 22nd for the ACCS Q&A session about optimisation and automation of microscopy workflows.
Learn how to optimise microscopy workflows in your institution.
About
Over the last few years, technological progress and optimisation of workflows at the Cryogenic Electron Microscopy at the University of Wollongong have enabled instrument scientists and researchers to assess the quality of cryoEM datasets in minutes rather than days. Much of this near-real-time data revolution has been made possible by automating and optimising a range of tasks involved in the early steps of data capture from microscopes.
In this presentation, Joshua Silver will explain how existing workflows were reassessed in order to enable the near-real-time assessment and visualisation of cryoEM data. In particular, he will highlight the challenges that needed to be overcome. Finally, Josh will show how the lessons learnt in optimising and automating cryoEM workflows can be applied to other instruments and workflows from data capture through to transfer, processing and visualisation.
This work was undertaken as part of the Australian Characterisation Commons at Scale (ACCS) project, under Work Package 4: “Big-data electron and correlative microscopy from instrument to publication”.
Note: This event will consist of a 15–20 min presentation by Josh followed by a 40 min discussion/Q&A.
Event details
Date
22 June 2023
Time
2:00 pm – 3:00 pm AEST
Location
Online
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project
About the speaker:
Joshua Silver is a Research Data Officer at the University of Wollongong. He has 25 years experience with Unix System Administration, Network design and macOS Support. He is currently assisting researchers at the University of Wollongong with managing their data storage and workflow needs.
Overview of XNAT
Join us on May 29th for a workshop on XNAT.
Learn the basics of using XNAT to enhance productivity of imaging-based projects.
About
XNAT is an open-source data platform for management and quality assurance tasks of imaging and associated data (xnat.org).
The Australian Characterisation Commons at Scale (ACCS) and the Australian Imaging Service (AIS) projects have leveraged this tool to manage organisational and Australian multi-site data collections.
XNAT is one of the most popular tools for managing Neuroimaging data collections. It facilitates common management, productivity, and quality assurance tasks for imaging and associated data. Thanks to its extensibility, XNAT can be used to support a wide range of imaging-based projects.
In this webinar you will learn how to:
Sign up for XNAT and support information
Manage users and collaborators
Upload and download data
Access data and use the OHIF viewer
Modify projects, subjects, sessions, and scans
Note: This workshop will be held in a hybrid format (in person at UQCCR and online via Zoom).
Please note that registration is compulsory.
Event details
Date
29 May 2023
Time
2:00 pm – 4:00 pm AEST
Location
In person at UQCCR and online
Host organisation
Herston Imaging Research Facility in partnership with the Australian Characterisation Commons at Scale (ACCS) Project
ARDC Nectar Research Cloud Basic Security
Australian Research Data Commons (ARDC) presents a webinar about Nectar Research Cloud Basic Security.
Learn some of the ideal practices required to keep your projects and instances on Nectar Cloud secure.
About
This training is an overview of security practices for Nectar users.
It is expected participants have a basic understanding of using Nectar before attending this session, ideally having attended an introductory training.
This session is being run online via Zoom, and registered participants will receive a Zoom link via email closer to the session.
Note that the AEST time zone is used for this session.
Please sign up using your AAF (institutional) email.
If can’t attend but are interested in this training and want updates about future sessions, sign up here.
Have questions? Email sonia.ramza@ardc.edu.au.
Event details
Date
26 May 2023
Time
11:00 am – 12:00 pm AEDT
Location
online event
Host organisation
Australian Research Data Commons (ARDC)
Getting Started with the ARDC Nectar Research Cloud
Australian Research Data Commons (ARDC) presents a webinar about Nectar Research Cloud.
Learn the basics of using the ARDC Nectar Cloud for your research.
About
Does your computer struggle with your research workload? Whether it’s data analysis, simulation or other computing work, the ARDC Nectar Research Cloud can help with your research!
ARDC Nectar Research Cloud allows you to access much faster computers via the Cloud to get your work done. No worries about your research applications, whether its Jupyter Notebooks/Python or R Studio and others, these are available to use too.
At the session, you will learn the following hands on cloud computing skills:
Where to find support
How to navigate the Nectar dashboard
How to set up and launch a cloud computer
Connecting to your cloud computer using the Command Line
Moving files to and from your cloud computer
A brief overview of administration involved (Project Trials, Allocations Forms)
Zoom link will be provided via email to registered participants prior to the training. The session is *not recorded*.
**Please sign up using your University/Institutional email**
Interested in more events like this? Check out the ARDC Nectar Support Centre .
Have questions? Email sonia.ramza@ardc.edu.au
Event details
Date
20 April 2023
Time
1:00 pm – 3:00 pm AEST
Location
online event
Host organisation
Australian Research Data Commons (ARDC)
Overview of Globus
Interested in understanding how to transfer large-scale research data? Join us on April 4th to learn how to do it using Globus.
About
The Globus data management service is provided to Australian researchers by AARNet. It is a robust and security-conscious solution for transferring large-scale research data.
Globus is one of the most widely used research data transfer services globally, developed by the University of Chicago and used by thousands of researchers at more than 1,500 Globus-connected institutions in 80 countries. By leveraging AARNet’s high-speed network, researchers can share research data between institutions in Australia and around the world quickly and efficiently.
Globus simplifies research data management by allowing researchers to access their research data from local storage, institutional storage, tape archives, commercial cloud storage, HPC systems and scientific instruments all from a single web browser. Other Globus features include secure authentication and authorisation, cross-institutional login, usage reports, transfer optimisation and support for custom-built applications, with optional functionality for connecting to third-party storage and managing protected data such as HIPAA.
Globus provides researchers the ability to transfer research data efficiently and securely between systems no matter where in the world they are located.
Topics:
What is Globus?
How does it work?
How to use it?
Event details
Date
4 April 2023
Time
1:00 pm – 2:00 pm AEST
Location
online event
Host organisation
AARNet in partnership with the Australian Characterisation Commons at Scale (ACCS) Project
About the speaker:
Chris Myers, DATA Solutions Specialist.
AARNet (Australian Academic and Research Network)
Chris has 28 years of experience working in the telecommunications and higher education sector especially in large data projects. Chris supports a wide array of data movement projects in training, consultation and design in the areas of astro/high energy physics, HPC, scientific Instruments, archives and film, cloud solutions, Data Centres fabrics and cybersecurity.
Chris is participating in the ACCS WP4 project and is lead for WP4.3.
ARDC Nectar Research Cloud Basic Security
Australian Research Data Commons (ARDC) presents a webinar about Nectar Research Cloud Basic Security.
Learn some of the ideal practices required to keep your projects and instances on Nectar Cloud secure.
About
This training is an overview of security practices for Nectar users.
It is expected participants have a basic understanding of using Nectar before attending this session, ideally having attended an introductory training.
This session is being run online via Zoom, and registered participants will receive a Zoom link via email closer to the session.
Note that the AEST time zone is used for this session.
Please sign up using your AAF (institutional) email.
If can’t attend but are interested in this training and want updates about future sessions, sign up here.
Have questions? Email sonia.ramza@ardc.edu.au.
Event details
Date
9 March 2023
Time
11:00 am – 12:00 pm AEDT
Location
online event
Host organisation
Australian Research Data Commons (ARDC)
Power Up Your Research: Getting Started With Nectar Research Cloud
Australian Research Data Commons (ARDC) presents an introductory webinar about Nectar Research Cloud.
Learn the basics of using the ARDC Nectar Research Cloud for your research.
About
Does your computer struggle with your research workload? Whether it’s data analysis, simulation or other computing work, the ARDC Nectar Research Cloud could be your answer. This service allows you to access much faster computers via the Cloud to get your work done. No worries about your research applications, whether it’s Jupyter Notebooks/Python or Rstudio and others, these are available too.
During this online session participants will learn the following with hands-on experience:
where to find support
how to Navigate the Nectar Dashboard
how to set up and launch a Cloud Computer
connecting to your Cloud Computer using the Command Line
moving files to and from your Cloud Computer
a brief overview of the administration involved (Project Trials, Allocations Forms).
A Zoom link will be sent to registered participants prior to the training. The session is not recorded.
Please sign up using your University or institutional email.
Your trainer is Sonia Ramza.
Have questions? Email sonia.ramza@ardc.edu.au.
Event details
Date
3 March 2023
Time
10:00 am – 12:00 pm AEDT
Location
online event
Host organisation
Australian Research Data Commons (ARDC)
First OHBM Australia Chapter webinar for 2023: A Beginner’s guide to starting a new project
The Organization for Human Brain Mapping (OHBM) presents the first OHBM Australia Chapter webinar for 2023: A Beginner’s guide to starting a new project
About
OHBM webinar team has been planning for an exciting year of webinars, panel discussions, workshops and tutorials about neuroimaging careers, techniques, technology and skill development. First webinar will focus on new beginnings.
Whether you are just beginning your PhD, embarking on your first year as an ECR, launching a new research project or even starting afresh in a new country, new beginnings can be tricky to navigate and can feel completely overwhelming. Join OHBM for an hour of discussion and learn from experts who have plenty of tips and resources to share with graduate researchers, ECRs and all those beginning something new in 2023.
Featured speakers:
Adeel Razi | Monash University | profile
Fernanda Ribeiro | University of Queensland | github
Megan Campbell | University of Newcastle | profile
Kelly Garner | University of Queensland | profile
OHBM webinar team is also keen to hear from you! What types of webinars/tutorials/discussions would you like to hear from OHBM this year? Let OHBM know via this link.
Event details
Date
28 February 2023
Time
4:00 pm – 5:00 pm AEST
Location
online event
Host organisation
The Organization for Human Brain Mapping (OHBM)
eResearch NZ 2023
eResearch NZ 2023
eResearch NZ 2023 will take place online and in-person on 15-17 February, and will be co-hosted by Genomics Aotearoa, Research and Education Network New Zealand (REANNZ) and the New Zealand eScience Infrastructure (NeSI). The in-person component of the event will take place at the University of Waikato, and will be delivered in partnership with Te Whare Wānanga o Waikato.
2023 Conference Theme
This year’s theme is Capability, Connectivity and Equity, and once again work from across the whole spectrum of eResearch will be showcased, with a strong focus on research and capability-building initiatives that involve partnerships with tangata whenua.
Key Dates:
Abstract submission close: 31st October 2022
Registration Open: 28th October 2022
Early Bird close: 9th January 2023
For more info and to register click here.
Masterclass: High-Performance Computing and Virtual Research Environments for Data Processing and Analysis
High-Performance Computing and Virtual Research Environments for Data Processing and Analysis - A masterclass!
About
The Australian Characterisation Commons at Scale (ACCS) partner organisation, Microscopy Australia is organising a two-half-day masterclass on the use of high-performance computing (HPC) and virtual research environments (VREs, also referred to as virtual laboratories) available to the Australian research community for data processing and data analysis.
The masterclass will include an introduction to HPC (including cloud computing) and VREs, and describe capabilities available in Australia. Data transfer will also be covered (available tools, and network performance measurements). Experts from various organisations, including NECTAR, the National Computational Infrastructure (NCI), the Queensland Cyber Infrastructure Foundation (QCIF), The University of Queensland, AARNet and the Pawsey Supercomputing Centre, will present their services and answer questions from the audience.
The masterclass will be run online on Monday 5 December (HPC) and Tuesday 6 December (VREs). You are welcome to register for just one or both sessions.
For more information and to download the program here
Day 1 - Monday, December 5th: 12pm - 4.30pm (AEDT)
Day 2 - Tuesday, December 6th: 12pm - 3.30pm (AEDT)
Brainhack Australasia 2022
The Australian Characterisation Commons at Scale (ACCS) Project and the National Imaging Facility (NIF) are proud sponsors of this year’s Brainhack Australasia event.
This year's Australasia Hub for Brainhack Global will be in-person for the very first time! We shall be hacking on all kinds of brain and open-science-related projects at the University of Sydney.
About
The purpose of Brainhack is to bridge the data science and neuroscience research communities to advance the progress of neuroscience. Brainhack is a unique conference that convenes researchers from across the globe and myriad disciplines to work together on innovative projects related to neuroscience. You can read more about the Brainhack meetings from our recent paper in Neuron.
Australasia Hub
We will be meeting for 3 full days of hacking from Wed Nov 30th - Fri Dec 2nd. Bring your own project to work on with the community, or join up with any of the local or international projects that are part of Brainhack Global 2022. If you'd like a flavour of what gets done at Brainhack, you can find a list of last year's projects here.
If you are new to coding, data science or neuroscience, no problem! All projects are tailored so that there is something to do for everyone, no matter your level of coding knowledge. Brainhack is a great place to gain skills by working on collaborative projects with the community.
Code of Conduct
Brainhack Global is dedicated to a harassment-free conference experience for everyone. Our anti-harassment policy can be found here.
EM Data Processing Portal
Australian Characterisation Commons at Scale (ACCS) is launching the Electron Microscopy Data Processing Portal.
Join us on November 17th, 2022
About
In recent years the number of electron microscopy (EM) instruments, especially cryogenic electron microscopes, has increased nationally and internationally. The large datasets produced by these instruments have elevated demand for compute capability to process the datasets.
The “EM Data Processing Portal” has been developed by the ACCS "Big-data electron and correlative microscopy from instrument to publication" team as a tool for processing the majority of CryoEM datasets using the software CryoSPARC. To support the wider electron microscopy community, the software LiberTEM is also available.
The “EM Data Processing Portal" is here to support the growing demand from the EM community, nationwide. This tool has recently been deployed and is currently running at Monash University and QCIF (Queensland Cyber Infrastructure).
Join us on November 17th (2pm - AEDT) to get the big picture of this newly deployed national service, and hear first-hand technical details from Jay van Schyndel (Monash University). You will also get insights from Dr Farrah Blades (Institute for Molecular Bioscience, UQ) and her perspective as a current user of the EM Data Processing Portal.
Event details
Date
17 November 2022
Time
2:00 pm – 3:00 pm AEDT
Location
online event
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project
Image source: Dr Matthew Weyland, Monash University Centre for Electron Microscopy - TEM FEI Tecnai T20 @ MCEM
ACCS Brain Imaging Hands-on Session: Advanced Imaging Application on the CVL Platform
HANDS-ON SESSION - Advanced Imaging Application on the CVL platform Following ACCS Brain Imaging workshop on Advanced Imaging Application on the CVL Platform, a practical session will be delivered on November 15th, 2022.
About
In this hands-on session, participants will focus on how to replicate the methods of the three modalities (1. structural MRI with spectral shape analysis in eigenmode analysis; 2. Diffusion tensor imaging (DTI) analysis; and 3. resting-state functional MRI analysis (presented at the webinar) on CVL@MASSIVE. The software, pipelines and practice data will be prepared for all participants.
The goal is to teach researchers how to access CVL and run these pipelines, which include eigen mode, DTI preprocessing through Mrtrix, fMRI preprocessing (Conn and fMRIprep) and connectome and seed-base analysis (Conn) and Connectome analysis using Network Based Statistic Toolbox.
Dr Yu-Chi Chen, Dr Chao Suo, and Suzan Maleki from Monash University will be running the session.
Although it is not compulsory to participate in the webinar to be able to join the hands-on session, it is highly recommended.
Event details
Date
15 November, 2022
Time
1:00 pm – 3:00 pm AEDT
Location
online event
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project
Network Performance Monitoring: What is it good for?
Interested in understanding what Monitoring network performance (network metrics) is good for? Join us on November 10th at 2pm (AEDT).
About
In this talk, Chris Myers from AARNet and the Australian Characterisation Commons at Scale (ACCS) Project will cover the perfSONAR solution as used by the ACCS to inform facilities in near real-time of network performance and capacity to transfer data.
perfSONAR system selection.
perfSONAR system location selection.
what measurements can be taken.
interpretation of these results.
Why we should have more of these.
*Network metrics are qualitative and quantitative ways to observe and determine network behaviour.
Event details
Date
10 November 2022
Time
2:00 pm – 3:00 pm AEDT
Location
online event
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project
About the speaker:
Chris Myers, DATA Solutions Specialist.
AARNet (Australian Academic and Research Network).
Chris has 28 years of experience working in the telecommunications and higher education sector especially in large data projects. Chris supports a wide array of data movement projects in training, consultation and design in the areas of astro/high energy physics, HPC, scientific Instruments, archives and film, cloud solutions, Data Centres fabrics and cybersecurity.
Chris is participating in the ACCS WP4 project and is lead for WP4.3.
ACCS Brain Imaging Workshop Series: Advanced Imaging Application on the CVL Platform
Continuing with ACCS Brain Imaging Workshop Series, our next webinar is on Advanced Imaging Applications on the CVL Platform. Join us on November 9th, 2022 for another comprehensive workshop series followed by a practical session on November 15th, 2022.
About
ACCS Brain Imaging Workshop Series started in 2021. Over five workshops focusing on processing brain magnetic resonance Imaging (MRI) on CVL, including data collection, data converting, basic imaging analysis on structural imaging data as well as machine learning on imaging have been delivered.
ACCS WP5 is thrilled to bring a new webinar as part of this series, this time focusing on advanced imaging applications on CVL in different MR modalities, including 1) structural MRI with spectral shape analysis in eigenmode analysis; 2) Diffusion tensor imaging (DTI) analysis, and 3) resting-state functional MRI analysis.
The workshop will be delivered in two parts: Webinar (9th/Nov, 13:00 to 15:00 AEDT) in which three experts will present their research work as examples of these three advanced imaging applications. This workshop will be followed by a hands-on session (15th/Nov, 13:00 to 15:00 AEDT) that will focus on how to replicate the methods of these three modalities (presented in the webinar) on CVL@MASSIVE, preparation of the software, pipelines and practice data for all participants. The goal is to teach researchers to access CVL and run these pipelines, which include eigenmode, DTI preprocessing through Mrtrix, fMRI preprocessing (Conn and fMRIprep) and connectome and seed-base analysis (Conn) and Connectome analysis using Network Based Statistic Toolbox.
Event Program
*This is a draft program, a final agenda will be updated closer to the event.
Structural MRI With Shape Analysis - Dr Kevin Aquino (The University of Sydney - BrainKey)
Title: A multiscale characterization on cortical shape
Structural connectivity of diffusion MRI - Ms Suzan Maleki (Monash Univeristy)
Title: Chronic cannabis use effects on brain connectivity: A connectome analysis (to be advised)
Functional connectivity of the fMRI - Hannah Thomson (Australian Catholic University)
Title: Examine Resting-state Functional Connectivity Differences between Heavy Cannabis Users and Non UsersThe preamble of the hands-on session on November 15th, 2022 -Dr Chao Suo, Dr Yu-Chi Chen and Suzan Maleki (Monash University)
A brief demonstration of how to run the relevant analysis on the CVL platform.
For more information about this webinar please contact us
IMPORTANT
This webinar will be followed by a hands-on session on November 15th, 2022. If you are interested in joining this session, please register here separately.
Although it is not compulsory to participate in the webinar to be able to join the hands-on session, it is highly recommended.
Event details
Date
9 November 2022
Time
1:00 pm – 3:00 pm AEDT
Location
online event
Host organisation
Australian Characterisation Commons at Scale (ACCS) Project
‘All Things Data’ Webinar: Increasing University-wide Research Data Management maturity — a journey
Please join Microscopy Australia for the next webinar in the ‘All Things Data’ series Increasing University-wide Research Data Management maturity — a journey presented by Yvette Wharton and Laura Armstrong (University of Auckland, NZ).
ABSTRACT
Research Data Management (RDM) is increasingly recognised as a critical knowledge gap for researchers as international and domestic funders, publishers, and ethics committees introduce more stringent requirements regarding Data Management Plans and the collection, storage and sharing of research data.
The University of Auckland | Waipapa Taumata Rau is responding to this evolving research landscape with a strategic RDM programme. Our journey started with several years of education and outreach, before a University-wide RDM stocktake and the development of an integrated Research Data Management framework consistent with international standards, including Māori Data Sovereignty, and FAIR data principles to improve data sharing.
We will outline the mahi (work) undertaken to date at Waipapa Taumata Rau and a series of recommendations and initiatives planned to lift RDM capability maturity. This will be of interest to those interested in developing services and increasing maturity in the management of research data.
SPEAKERS BIOS
Yvette Wharton is a technical lead on two RDM Programme Initiatives and the Centre for eResearch’s Solutions Lead working on research data management services and researcher enablement projects.
Laura Armstrong has provided research data management services and outreach for several years, most recently as the Centre for eResearch’s Engagement Lead. Co-author of the University of Auckland’s RDM Stocktake report and RDM capability maturity model, Laura is keen to share insights on this and current work to develop the University’ RDM policy and data security classification.
This webinar is part of a series that that will explore the guiding principles of research data management, research data management tools, and how users and facilities can make their research data more FAIR (Findable, Accessible, Interoperable, Reusable). It occurs every two months and is hosted by Dr David Poger. Please direct any questions to david.poger@micro.org.au
Feel free to share with anyone, or any group or community, you think may be interested. Please note, this webinar will be recorded.
After registering, you will receive a confirmation email containing information about joining the meeting.
Location: Online (Registration is required)
Time: 27 October 2.00 pm (AEDT)
Host Organisation: Microscopy Australia
eResearch Australasia Conference
The eResearch Australasia Conference provides an exciting opportunity for delegates to engage, connect and share their ideas and exemplars concerning new information-centric research capabilities, and how ICT technologies can help researchers to collaborate, collect, manage, share, process, analyse, find, understand and reuse information.
This year’s conference will take place from 17 – 21 October and will be delivered in a hybrid format, with the in-person component of the event to be held at the Brisbane Convention and Exhibition Centre.
The Australian Characterisation Commons at Scale (ACCS) project will be delivering over 5 different talks across all work packages.
PITSCHI: a FAIR data management solution for UQ-CMM scientific instruments.
High-Level Architecture for The Australian Biomedical Imaging Research Database (online)
Transport, movement, processing and management of big data in microscopy: the Australian Characterisation Commons at Scale project
Introducing opendata.fit: a FAIR data analysis and publication platform
Australian Characterisation Commons at Scale (ACCS) project.
PRE & POST CONFERENCE WORKSHOPS
The call for pre and post-conference workshops is opened. Those interested in hosting a workshop are encouraged to make a submission via the following web page.
conference.eresearch.edu.au/call-for-workshops/
Early registration will close on September 30th, 2022
For more information, to submit an abstract or register, please visit eResearchAustralia
Assessing data quality in minutes: the near-real-time data capture revolution in microscopy
Join ACCS for the next “All things data” part of the Microscopy Australia webinar series.
Within a few years, technological progress and optimisation of workflows have enabled instrument scientists and researchers to assess the quality of datasets in minutes rather than days. Much of this near-real-time data revolution has been made possible by automating and optimising a range of tasks involved in the early steps of data capture from instruments.
About
In this webinar, considerations from an IT perspective will be presented together with challenges that have been encountered along the journey. Joshua Silver (University of Wollongong) from the Australian Characterisation Commons at Scale (ACCS) project - Work Package 4: “Big-data electron and correlative microscopy from instrument to publication” will focus on the case of cryogenic electron microscopy (cryo-EM), a technique known to generate large volumes of data per experiment.
Future developments and improvements in data capture and data workflow will also be outlined. This work was undertaken under WP4 on the ACCS project.
This webinar is part of a series that will explore the guiding principles of research data management, research data management tools, and how users and facilities can make their research data FAIR (Findable, Accessible, Interoperable, Reusable). It occurs every two months and is hosted by Dr David Poger. Please direct any questions to david.poger@micro.org.au.
Event details
Date
2 September 2022
Time
11:00 am - 12:00 pm AEST
Location
online event
Host organisation
Microscopy Australia
‘All Things Data’ Webinar: The Australian Characterisation Commons at Scale project – an update
Join us to hear recent progress from ACCS Work Package 4, Dr David Poger Microscopy Australia’s research data manager and WP4 lead will take us through all the updates
The Australian Characterisation Commons at Scale (ACCS) project commenced in 2020 and is funded by the Australian Research Data Commons (ARDC) alongside 16 other partners, including Microscopy Australia.
Microscopy Australia has been particularly involved in the work package “Big-data electron and correlative microscopy from instrument to publication” that David has led. As ACCS will be winding down in February 2023, David will give an overview of the outcomes of the work package.
This webinar is part of a series that will explore the guiding principles of research data management, research data management tools, and how users and facilities can make their research data FAIR (Findable, Accessible, Interoperable, Reusable). It occurs every two months and is hosted by Dr David Poger. Please direct any questions to david.poger@micro.org.au
Feel free to share with anyone, or any group or community, you think may be interested. Please note, that this webinar will be recorded.
After registering, you will receive a confirmation email containing information about joining the meeting.
Event details
Date
25 August 2022
Time
2:00 pm - 3:00 pm AEST
Location
online event
Host organisation
Australian Characterisation Commons at Scale and Microscopy Australia
CryoEM Intensive Course
The Ramaciotti Centre for CryoEM at Monash University is running a CryoEM intensive course on data processing with the option to also learn CryoEM microscopy.
Supported by the Chan Zuckerberg Initiative and organised by Georg Ramm and Hari Venugopal from the Ramacitti Centre, the CryoEM intensive course is limited to 24 places.
Applicants need to provide a short statement (up to 500 words) addressing how they would apply this knowledge to their cryo-EM projects. Additionally, a letter of support from their supervisor or facility manager should be submitted and uploaded as a pdf.
Training course dates: 22–26 August 2022
Registration closes: 22 July 2022
Location: Monash Ramaciotti Cryo-EM Facility, 15 Innovation Walk, Clayton, Victoria
Audience: HDRs, ECRs, EM facility staff, or other…
Registration cost: AUD $500.00
Course Outline:
Lectures on structural cryo-EM
Introduction to cryoEM theory
Sample preparation
Image acquisition
Data processing
Artefacts
Hands-on processing and data analysis using CVL@M3
Accessing and using the Characterisation Virtual Laboratory (CVL) - www.cvl.org.au
CryoSPARC
RELION
Optional practical sessions in cryoEM sample preparation and imaging or more data processing on days 4 & 5
*The attendees will use data generated by the Ramaciotti Centre to analyse as part of the course but are welcome to bring along their own existing data sets.
To register please complete the registration form before 22 July, when registration closes.
ACCS Brain Imaging Workshop Series: Australasian Brain & Psychological Sciences Meeting (ABPS) 2022
This will be a combined meeting of the Australasian Society for Experimental Psychology (EPC), the Australasian Cognitive Neuroscience Society (ACNS), and the Australian Chapter of the Organization for Human Brain Mapping (OHBM).
ACCS Brain Imaging Series. Drop-in. Troubleshooting activities with ML analysis on CVL@Wiener.
This is a drop-in session for CVL@Wiener users who attended the previous workshop on 26 May and who would like to ask any questions about adapting the workflows to work on that platform. Previous attendees with follow-up questions regarding running analyses on CVL@M3 are also welcome to pop by.
ACCS Brain Imaging Series. Workshop. Activities with ML analysis on CVL@M3.
A follow-up workshop from the Machine Learning webinar, looking at ways to implement ML techniques within CVL@M3.
ACCS Brain Imaging Workshop Series: Webinar on Machine Learning for Neuroimaging
The ACCS Brain Imaging Series announces a second theme for 2022: machine learning for neuroimaging. Bringing together experts from Australian and New Zealand, these events will explore how advances in ML can be used in the neurosciences.
ACCS Brain Imaging Series. Drop-in. Troubleshooting working with sMRI data within CVL.
This is a drop-in session for CVL@Wiener users who attended the previous workshop on 31 March and who would like to ask any questions about adapting the workflows to work on that platform. Previous attendees with follow-up questions regarding running analyses on CVL@M3 are also welcome to pop by.
ACCS Brain Imaging Series. Workshop on working with sMRI data within CVL.
In this hands-on session, Dr Chao Suo (Monash University) builds on the theme of practical methods in analysing sMRI data using the CVL. Participants will follow analysis pipelines using example data. Workshop attendees are also invited to BYO data and are welcome to ask Chao’s advice and guidance for their planned analyses.
Microscopy Australia: The Characterisation Virtual Laboratory (CVL)
You are invited to attend Microscopy Australia’s next ‘All Things Data’ webinar: The Characterisation Virtual Laboratory (CVL) by Dr Kathryn Hall.
ACCS Brain Imaging Workshop Series: Lecture on working with sMRI data within CVL.
The ACCS Brain Imaging Series launches for 2022 with a session by Dr Chao Suo (Monash University), focussing on practical methods in analysing sMRI data using the CVL.
ImagingTools is an initiative of the Australian Characterisation Commons at Scale (ACCS) Project. ACCS is supported by the Australian Research Data Commons (ARDC).
The ARDC is enabled by NCRIS.