Australian Synchrotron Microscopy Workshop 2023: Data Analysis. A virtual 2-day event.

20 Nov 2023, 10:00 → 21 Nov 2023, 16:00 Australia/Melbourne

Australian Synchrotron (Virtual Event)

Andrew Langendam (ANSTO), Annaleise Klein (ANSTO)

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About this event
So, you've dusted off your lab notebook and have dug through your hard-drive and found some old (or not so old) synchrotron data. Great! Now what? Come along to our 2-day data analysis workshop and get some help diving into that data and discovering its secrets!

This two-day workshop will cover data processing using GeoPIXE for XFM and introduce our infrared community to Quasar, an open-source software for visualisation and statistical analysis developed in conjunction with the international synchrotron community.

Data analysis sessions will be primarily pre-organised presentations covering the basics, but then tailored to your questions posed on the registration form. Opportunities for Q&A will be available in each session.

Monday 20th November (Day 1)
We start with a general update focused on recent advancements from the four beamlines in the microscopy group: X-ray fluorescence microscopy (XFM), terahertz (THz), infrared microspectroscopy (IRM), and nanoprobe (Nano).

After lunch we jump into analysing XFM data with GeoPIXE (fitting, element association, XANES, batch processing etc) with the XFM team and guest speaker, Chris Ryan, the developer of GeoPIXE.

Tuesday 21st November (Day 2)
In the morning, we hear about the revitalisation of the CT processing pipeline and ptychography at XFM. Following, a dedicated Q&A session for your questions about using GeoPIXE.

After lunch, an introduction to the available software from IR for visualisation and statistical analysis of both single spectra and hyperspectral infrared data. Examples of hierarchial cluster analysis (HCA) and principal component analysis (PCA) will be shown in Quasar, an open-source software package . Following, a dedicated Q&A session for your questions about analysing IR data.

Who should attend?
Anyone who has XFM or IR data.

*Heading image supplied by Daniel McDougall. View research article

Quasar mini-workshop.mp4

Workshop recordings

• 01_GeoPIXE basics_ASMG Workshop 2023.mp4
• 02_Advanced GeoPIXE tools_ASMG Workshop 2023.mp4
• 03_GeoPIXE QandA session_ASMG Workshop 2023.mp4
• 04_Data processing for IR_ASMG Workshop 2023.mp4
• 05_Quasar demonstration_ASMG Workshop 2023.mp4
• 06_THz beamline update_ASMG Workshop 2023.mp4
• 07_IRM beamline update_ASMG Workshop 2023.mp4
• 08_XFM beamline update_ASMG Workshop 2023.mp4
• 09_Nano beamline update_ASMG Workshop 2023.mp4
• 10_Data processing for ptychography_ASMG Workshop 2023.mp4

Monday, 20 November

10:00 Day 1 Event Commences - Welcome

1 X-ray fluorescence microscopy (XFM) beamline update

Speaker: Daryl Howard (Australian Synchrotron)

2 Terahertz (THz) beamline update

Speaker: Ruth Plathe (ANSTO)

3 Infrared Microsopectroscopy (IRM) beamline update

Speaker: Jitraporn (Pimm) Vongsvivut (Australian Synchrotron)

4 Nanoprobe (Nano) beamline update

Speaker: Martin de Jonge (ANSTO)

12:15 Lunch Break

5 Analysis of XFM data using GeoPIXE

In this session we aim to cover topics including:
● Introduction to GeoPIXE
● DAI
● Spectra
● Fitting
● Element association
● XANES and batch processing

Speakers: Andrew Langendam (ANSTO), Daryl Howard (Australian Synchrotron), David Paterson (ANSTO)

14:30 Afternoon tea break

6 Analysis of XFM data using advanced GeoPIXE tools

Dr Chris Ryan from CSIRO will present on some advanced analysis tools available in GeoPIXE including:
● Multi-matrix processing
● Depth profiling

Speaker: Chris Ryan (CSIRO)

16:00 Closing Remarks

Tuesday, 21 November

10:00 Day 2 Event Commences

7 CT processing pipeline

Speaker: Dr Carl Yang (ANSTO)

8 Ptychography: analysis and data processing

Speaker: Dr Cameron Kewish (ANSTO)

9 Q&A session for GeoPIXE

A session dedicated for addressing questions asked in the registration form.

Speakers: Andrew Langendam (ANSTO), Daryl Howard (Australian Synchrotron), David Paterson (ANSTO)

12:00 Lunch Break

10 Analysis of IR data (THz and IRM)

The session will begin with a general introduction to the processing tools available (OPUS, Quasar, and Cytospec on ASCI).
Following, a more detailed introduction into the open-source software, Quasar, including how to perform some common multivariate analyses such as hierarchical cluster analysis (HCA) and principal component analysis (PCA).

Speakers: Annaleise Klein (ANSTO), Keith Bambery (ANSTO)

14:30 Afternoon tea break

11 Q&A session for IR analysis

Speakers: Annaleise Klein (ANSTO), Dom Appadoo (Australian Synchrotron), Jitraporn (Pimm) Vongsvivut (Australian Synchrotron), Keith Bambery (ANSTO), Ruth Plathe (ANSTO)

15:30 Closing Remarks