Pre-Conference Workshops

For more information on each workshop, click on the titles below.

 

+ Volume imaging for Life Sciences

Convenor: Rick Webb (UQ)
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

This workshop will give an overview of volume scanning electron microscopy (SEM) techniques currently available for life sciences. There will be a series of lectures which will cover sample preparation for biological samples including automated serial sectioning, serial block face SEM (SBF SEM), array tomography, focused ion beam SEM (FIB SEM) and correlation of volume SEM with light and X-ray microscopy.

+ EM Maintenance

Convenor: Dr Richard Wuhrer (Univ. of Western Sydney)
Invited Speakers: Terrence DaSilva, Ken Moran and Luke Basso
Duration: Full Day
Day: Sunday, 16th Feb
Cost: $250 for full conference delegate, $300 workshop only

The care and correct maintenance of an SEM is the key aspect for a correctly operating instrument. This workshop will cover many aspects of SEM maintenance. Some of the topics to be covered include: Vacuum Systems and their maintenance, cleaning of microscopes parts such as apertures and wehnelt assembly, basic monitoring of instrument, testing of instrument operation (resolution, magnification calibration), EDS maintenance and calibration, monitoring filament conditions (filament life improvement and setting), and sorting out imaging problems. The topics to be covered are:Vacuum Systems, Maintenance, Performance and monitoring, Diffusion and turbo pumps, Specimen contamination rate, Cleaning of microscopes parts, Cleaning by hand and wet cleaning, Column cleaning - apertures and Wehnelt assembly, Cleaning the column, Electron gun, Filament life and type of break, Filament life improvement and setting. Monitoring filament conditions. Microscope: Basic monitoring of instrument, Instrument settings (currents and/or control positions), Testing of instrument operation. Imaging: Magnification calibration at specific kVs and at specific magnifications. Resolution test at a range of kV at specific working distances/focal lengths. Sorting out imaging problems. Detectors: (Checking and maintenance), Monitoring the EDS Detector EDS Checking, EDX calibration and calibration change, EDX resolution at FWHM on Mn and Al at a specific kV. L to K ratio of a popular element, EDX LN2 quantity per fill (or SDD temperature check), Electrical System of SEMs (fuses, power supplies etc)

+ Electron Energy Loss Spectroscopy and Electron Dispersive X-ray Spectrometry

Convenor: Vicki Keast (Uni. of Newscastle)
Invited Speaker: Nestor Zaluzec


Duration: Half Day
Day: Sunday Afternoon, 16th Feb
Cost: $125 for full conference delegate, $175 workshop only

An Introduction to EDS and EELS in the TEM. This workshop will introduce participants to the basic principles of performing elemental analysis in the transmission electron microscope (TEM) using X-ray Energy Dispersive Spectroscopy (EDS) and Electron Energy Loss Spectroscopy (EELS). A brief introduction to the information available in EELS fine structure will also be given.

+ Cathodoluminescence

Convenors: Mark Lockrey (UTS) and Olivier Lee Cheong Lem
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

Cathodoluminescence (CL) is a powerful technique for probing the electron-beam induced light emissions form geological, semiconductor and plasmonic materials. This workshop will explor both the fundementals of CL generation and signal formation as well as practical aspects of CL collection and data analysis. The morning session will cover the fundamentals of CL generation and detection from both semiconductors and plasmonic materials. The practical aspects of different experimental techniques such as angle, power, temperature, and depth resolved CL will also be discussed. The afternoon session will be a hands on lab demonstration using a Gatan MonoCL CL system.

+ Focused Ion Beam

Convenor: Lily Li (ANU)
Invited Speakers:
Dr. Charlie Kong (UNSW), Dr. Mitchell Nancarrow (Uni. Wollongong), Dr. Animesh Basak (Uni. Adelaide) Dr. Alex Demarco (Uni. Monash), Dr. Steven Moody (Uni. Sydney) and Mr. Liam Hanlon (ANU)
Duration: Half Day
Day: Saturday Afternoon, 15th Feb

Cost: $125 for full conference delegate, $175 workshop only

Focused ion beams (FIB) and associated techniques have played a critical role in developing the basic concept for nanoscience and nanotechnology, which have emerged as one of the most advanced multifunctional platform for nanofabrication and site-specific characterisation in multidisciplinary academic areas. This workshop will include the introduction to FIB fundamentals and its practical applications on both physical, material and biological sciences. It is suitable for both new starters and experienced FIB users.

+ Scanning Transmission Electron Microscopy

Convenor: Bryan Esser (Monash)
Duration: Full Day
Cost: $250 for full conference delegate, $300 workshop only

With the latest in aberration correction, holder designs, and detectors we are able to ask new questions and characterize materials in ways that give unprecedented insights from the atomic to micron scale. This workshop will start with a general overview of the mechanics of electron microscopy, including physical phenomena and hardware. We will also cover advances in scanning/transmission electron microscopy and associated techniques including high resolution imaging, tomography, and simulation. The workshop will be suitable for both advanced and new microscopists.

+ Sensitive High-Resolution Ion Microprobe

Convenor: Trevor Ireland (ANU)
Duration: Full Day
Day: Sunday, 16th Feb
Cost: $250 for full conference delegate, $300 workshop only

The course is designed to give participants an introduction to the analytical capabilities of SHRIMP – Sensitive High Resolution Ion MicroProbe. SHRIMP has been applied to particular areas such as U-Pb geochronology and oxygen stable isotope analysis, but also has capabilities in other stable isotope systems (C, S) as well as trace element geochemistry. Sample preparation and characterisation (SEM, CL, optical imaging) will be covered. Instrumental aspects such as instrument polarity, ionisation efficiencies, matrix effects, will also be addressed. The course will give an overview of secondary ion mass spectrometry and its application in Earth and materials sciences. Participants do not need previous knowledge about this technique.

+ Laser Ablation-Inductively Coupled Plasma Mass Spectrometry

Convenor: Gabriel Enge (ANU)
Duration: Full Day
Day: Sunday, 16th Feb
Cost: $250 for full conference delegate, $300 workshop only

The course is designed to give participants an introduction to the analytical capabilities of laser ablation – inductively coupled plasma spectrometry and should be of particular benefit to participants without pre-knowledge. LA-ICP-MS has become one of the most common solid sampling technique for major, minor and trace element analysis. The course will explain how LA ICP-MS works. Details about basics in lasers and ICP-MS instrumentation and their combination will be explained. Examples for transient data acquisition, method development, and a large number of applications will be discussed to give a feel for the quantification capabilities of this analytical technique. Topics also will include terms and terminology, laser technologies, ablation cell design and interfacing, ablation processes, transport phenomena, and measurement systems. Participants do not need previous knowledge about this technique.

+ Electron Backscattered Diffraction

Convenor: Hua Chen (ANU)
Invited Speakers:
Dr Julie Sheffield-Parker (Presenting Trends and Innovations of EBSD techniques), Dr. Mitchell Nancarrow (EBSD sample preparation), Dr. Azdiar Gazder (EBSD set up and configuration, processing EBSD data), Dr. Zakaria Quadir (TKD and its data processing), Dr. Mark Pearce (EBSD Applications for geological science)and Dr. Adam Taylor (EBSD application in the material science)

Duration: Half Day
Day: Sunday Morning, 16th Feb

Cost: $125 for full conference delegate, $175 workshop only

The EBSD workshop will be a half day. It will commence with a welcoming speech and a short talk of the EBSD works at ANU, and then move to detail topics that will cover the presenting trends and innovations of EBSD techniques, sample preparation, set up and configuration, TKD, processing EBSD data, in-situ EBSD, and EBSD applications in geological science and materials science, etc. There will also be open discussions at the end of each speech. It's also an opportunity for the delegates to exchange new ideas and application experiences, establish research connections and find partners for future cooperation. This workshop will target the beginning and intermediate EBSD users.

+ Micro-CT

Convenor:Andrew Kingston (ANU)

Duration: Full Day
Day: Sunday, 16th Feb

Cost: $250 for full conference delegate, $300 workshop only

This full-day workshop will first cover the theory of some common laboratory and synchrotron X-ray microscopy and tomography techniques. Conventional X-ray attenuation imaging will be outlined along with several alternative contrast modalities such as phase-contrast techniques and X-ray fluorescence; detailed application case studies will be presented for each technique. Following this some more practical issues will be covered such as sample preparation and how to optimise instrument settings to maximise image quality. The afternoon will involve two hands-on sessions using open-source software: (1) the X-ray image and volume processing capabilities of ImageJ/Fiji and the various plug-ins available; (2) Drishti, a 3D visualisation software for exploration and presentation of tomographic volumes.

+ Cryo-EM for Structural and Cell Biology

Convenor: Andrew Leis (Melbourne Uni.)
Duration: Two Days
Day: Saturday 15th and Sunday 16th Feb
Cost: $400 for full conference delegate, $450 workshop only

This two-day workshop will explore best-practice for cryo-EM data acquisition, including critical microscope alignments, efficient sample preparation, data workflows, and reconstruction strategies for single-particle analysis and electron tomography.

The workshop aims to give participants the confidence to acquire publishable data using a modern electron microscope, and to produce meaningful graphics aimed at presenting 3D reconstructions of features of interest.

Participants will benefit from real-time, remote access to several state-of-the-art Cryo-EMs across Australia. Theory will include an overview of 3D data acquisition methodology – single-particle analysis, electron tomography, X-ray tomography, ‘slice and view’ tomography – as well as ‘how to’ tutorials on sample preparation and data visualization.

+ Electron Probe Micro Analysis

Convenor: Jeff Chen (ANU)
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

This workshop will focus upon the theory and applications of electron-beam based microanalysis. It is intended to provide a good introduction for newcomers, as well as a refresher for more experienced users.

The topics/activities covered in this workshop will be

• Fundamentals of electron-beam based microanalysis (EDS/WDS)

• Applications in materials research

• Applications in archaeology research

• Applications in earth sciences research

• Applications in mineral processing research

• Hands-on sessions on JEOL 8530F plus electron microprobe.

+ Spectroscopy and Analysis using SEM and EPMA techniques

Convenors: Raynald Gauvin (McGill Univ.) and Colin MacRae (CSIRO)
Invited Speaker: Nick Wilson – DFT
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

This workshop will focus on the soft x-ray range of microanalysis. We will discuss aspects related to the fundamental of quantification and also instrumentation (detectors especially). The applications of soft x-ray analysis will also be discussed with special attention to the problem of detecting Lithium. Topics to be covered:

  1. EELS collection in an SEM

  2. Monte Carlo modelling of soft x-rays

    a. Generation depth

    b. Surface sensitivity

    c. Production efficiency – EELS, X-rays and Auger

  3. Collection of soft x-rays – EDS and SXES

  4. Diffraction gratings development presenter to be confirmed

  5. Sample prep requirements for Metals and Minerals

    a. FIB-SEM, ion beam milling and Inert transfer

  6. DFT calculations of soft x-rays – Wien2K and other codes

  7. Case studies – Al(Li), Mg(Li), CrCarbon based spectroscopy

+ HyperSpy

Convenor: Eric Prestat (Uni. of Manchester and SuperSTEM)
Duration: Full Day
Day: Sunday, 16th Feb
Cost: $250 for full conference delegate, $300 workshop only

HyperSpy (https://hyperspy.org) is an open source Python library which provides tools to facilitate the interactive data analysis of multi-dimensional datasets that can be described as multi-dimensional arrays of a given signal. Its development has been motivated by the data analysis needs of the electron microscopy community but it is proving useful in many other fields. Its modular and extensible structure makes it easy to add features to analyse different kinds of signals. This workshop will cover the following topics:

Introduction to HyperSpy and related Python libraries for multi-dimensional image and spectra processing and analysis

•    Machine learning
•    Big data (out-of-core) processing
•    Curve fitting of multi-dimensional datasets
•    EELS and EDS analysis

It will also include short demonstrations of data processing using HyperSpy extensions:

•    Atomic resolution image analysis using the atomap library
•    Scanning electron diffraction analysis using the pyXem library
•    Processing of 4D STEM dataset using the pixStem library

For this hands on and interactive short course, attendees will need to install software on their own laptop in advance and bring it with them to the short course (instructions will be provided).

+ Raman/Fourier Transformed Infra-Red Spectroscopy

Convenor: Christian Notthoff (ANU) and Rosemary White (ANU)
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

Hyperspectral imaging techniques such as FTIR- and Raman-microscopy combine detailed spectroscopic information with high spatial resolution. Both techniques are routinely used for a wide range of materials/systems across disciplines like biology, chemistry, earth sciences, material sciences, and more. The applications range from high throughput semiconductor quality control to the investigation of chemical processes in a living cell. This workshop will address the basic concepts of FTIR- and Raman-spectroscopy, as well as aspects of optical microscopy relevant to the techniques in the form of two lectures. A hands-on demonstration of Renishaw's inVia Raman microscope at ANU and a Bruker Hyperion 3000 FPA FTIR microscope at CSIRO (TBC) will be available to a limited number of participants.

+ Image Analysis I - Fundamentals and Manual Analysis

Convenor: Cameron Nowell (Monash Uni.)
Duration: Full Day
Day: Saturday, 15th Feb
Cost: $250 for full conference delegate, $300 workshop only

An introduction to image analysis in general with hands on sessions using the Fiji distribution of ImageJ. This full day workshop will be split into two major modules Module 1: Fiji for Beginners

  • Basics of digital imaging and analysis

  • Opening and visualising data (2D, 3D and 4D)

  • Calibration and figure preparation

Module 2: Fiji for Quantification

  • Area analysis

  • Cell counting and segmentation

  • Kymograms

  • Distance measurements (Euclidean and Nearest Neighbour)

  • Intensity over time

  • Machine learning

+ Image Analysis II - Automation of Fiji Through Macro Programming

Convenor: Cameron Nowell (Monash Uni.)
Duration: Full Day
Day: Sunday, 16th Feb
Cost: $250 for full conference delegate, $300 workshop only

This workshop is for those that are already familiar with manually analysing images using Fiji/ImageJ but want to take the next step and learn how to automate and code their own macros. The examples used will showcase various useful demo data such as cell counting, segmentation, tile scanning.

Topics covered include:

  • Batch processing folders of files
  • Custom tables and data logging
  • Variables
  • Arrays

+ Lightsheet Microscopy

Convenors: Cathy Gillespie (ANU) and Steve Lee (ANU)
Duration: Half Day
Day: Sunday Morning, 16th Feb
Cost: $125 for full conference delegate, $175 workshop only

Lightsheet fluorescence microscopy (LSFM) offers a faster, less phototoxic method for 3-D imaging compared to other techniques such as confocal and 2 photon microscopy, making it an ideal method for 3D imaging of large samples and living samples over long periods of time. This workshop will provide an overview of the many lightsheet techniques available and will include these topics:

• How a lightsheet microscope works and its components

• Types of lightsheets

• Applications

• Understanding lattice lightsheet

• Advantages and limitations of LSFM

• How to choose the right microscope for your needs

• Sample Preparation techniques eg clearing and refractive index matching.

+ Multi-Photon Microscopy

Convenors: Cathy Gillespie (ANU) and Steve Lee (ANU)

Duration: Half Day
Day: Sunday Afternoon, 16th Feb
Cost: $125 for full conference delegate, $175 workshop only

Multi-photon microscopy is a well proven technique which is used extensively for intra-vital, deep tissue and live cell imaging. Applications include cell tracking in 3D within intact organs or tissues, 3D imaging of cleared samples and in vivo imaging of neuronal structure and signals.

Topics covered in this workshop will include:

  • Principle of 2 and 3 photon microscopy
  • Second harmonic generation
  • Components and of a multi-photon and their specifications
  • Advantages and limitations
  • How to choose the right microscope for your needs
  • Demonstration of 2 systems – a commercially available system and a high speed, flexible custom built system.