Completely revamped 3D visualisers

Completely revamped 3D visualisers 

Additionally to a series of bug fixes in the 3D data loader, the 3D visualiser and the 3D overlay tools were redesigned to allow more customisation (they are also now applicable to both the original data AND MVA results!).

The Z-correction tool has also been improved. The user can now pre-process the data and select whether to base the correction on a substrate or topographical feature

New Z-correction tool
3D viewer
3D overlay

18 example datasets!

You can now find on the top menu 18 different example datasets of various different structures. This includes 4 examples of analytical techniques other than SIMS. This list of examples is as follows:

Imaging

  • Particles: metal particles on an organic substrate.
  • Blend: a cross-section of a polymer blend deposited onto a metal substrate (see publication).
  • Adhesive 1 & 2: surface of an industrial adhesive with circular features.
  • Droplet: surface of a topographical metal droplet.

Spectra

  • Dicarboxylic acids: a set of spectra from standard dicarboxylic acids (see publication).
  • Wood: spectra from wood samples together with standards for lignin and cellulose (see publication).
  • Polypropylene: spectra of polypropylene-based composites with varying formulations.

Depth Profiling

  • Metal multilayer: a dual-beam (Bi+ Cs+) depth profile of various different metallic layers.
  • Organic/metal interface: a dual beam (Bi+ Ar_n+) depth profile of a hybrid interface.

3D Data

  • Encapsulated polymer: a polymer “sphere” encapsulated by another polymer matrix.
  • Copper grid: a copper grid on an aluminium substrate.
  • Organic/metal interface: the 3D version of the depth profiling example.

Other Techniques

  • Raman map: a Raman microscopy map of a droplet casted on SiO2.
  • XPS profile: an XPS – C1s depth profile.
  • PIXE map: a microbeam PIXE map of a cross-section.
  • PIXE spectra: a set of various slightly different broad-beam PIXE spectra.



New simsMVA version with major updates!

Dear user

A new version of simsMVA is out and it includes a number of new features. This will be a rather long list but we would like to highlight all major updates:

18 example datasets!

You can now find on the top menu 18 different example datasets of various different structures. This includes 4 examples of analytical techniques other than SIMS. This list of examples is as follows:

Imaging

  • Particles: metal particles on an organic substrate.
  • Blend: a cross-section of a polymer blend deposited onto a metal substrate (see publication).
  • Adhesive 1 & 2: surface of an industrial adhesive with circular features.
  • Droplet: surface of a topographical metal droplet.

Spectra

  • Dicarboxylic acids: a set of spectra from standard dicarboxylic acids (see publication).
  • Wood: spectra from wood samples together with standards for lignin and cellulose (see publication).
  • Polypropylene: spectra of polypropylene-based composites with varying formulations.

Depth Profiling

  • Metal multilayer: a dual-beam (Bi+ Cs+) depth profile of various different metallic layers.
  • Organic/metal interface: a dual beam (Bi+ Ar_n+) depth profile of a hybrid interface.

3D Data

  • Encapsulated polymer: a polymer “sphere” encapsulated by another polymer matrix.
  • Copper grid: a copper grid on an aluminium substrate.
  • Organic/metal interface: the 3D version of the depth profiling example.

Other Techniques

  • Raman map: a Raman microscopy map of a droplet casted on SiO2.
  • XPS profile: an XPS – C1s depth profile.
  • PIXE map: a microbeam PIXE map of a cross-section.
  • PIXE spectra: a set of various slightly different broad-beam PIXE spectra.

Save/Load project is now fully functional

Datasets can now be saved into .mat files and subsequently loaded in any other new tab of the same kind (Spectra, Profiles, Images or 3D).  No more stitching the same set of patches every time or waiting to load a long 3D dataset!

Save and Load buttons

Completely revamped 3D visualisers 

Additionally to a series of bug fixes in the 3D data loader, the 3D visualiser and the 3D overlay tools were redesigned to allow more customisation (they are also now applicable to both the original data AND MVA results!).

The Z-correction tool has also been improved. The user can now pre-process the data and select whether to base the correction on a substrate or topographical feature

New Z-correction tool
3D viewer
3D overlay

Convert 3D data into 2D and 1D

It is now possible to convert a 3D dataset into 2D (imaging) or 1D (depth profiling) data. The converted dataset will be loaded on a new tab, maintaining its “hyperspectral” aspect. This is an extremely useful tool that was developed out of need (no other software can do that).

The 3D->2D,1D conversion tool

Add peak labels in Imaging, Profiling and 3D modes

It had been long overdue, but it is finally possible to add peak labels in modes of analysis other than “Spectra”. A button has been added next to the variable selector in each mode.

“Set labels” button

Confidence intervals are now shown in Spectra PCA scores plots

And it is possible to change markers’ size!

Confidence intervals

Thank you very much for your support and feedback.

Updates 27/07/2018

The newest version of simsMVA has got several bug fixes plus some new features, including:

New, cleaner default visual theme

homescreen

newtheme

 

Surface coverage calculator in imaging mode ()coverage2

Interactive z-correction for 3D data (tutorial soon)

zcorrection

Black/White background colour for images overlay 

overlayBG

NEW multi mode for combined analysis of spectra, profiles, images and 3D datasets! (example and tutorial soon) 

multimode

Slider to control number of principal components shown in variance panel

variance

 

 

How to run the MATLAB version of simsMVA

Dear simsMVA user

This is just a quick guide on how to set up and run the MATLAB version of simsMVA.

1 – unzip the files

2- inside MATLAB, find the folder, right-click on it and select “add to path -> selected folder”

addpath1

3 – go to the command window and type in “simsMVA”

addpath2

You will need to do step 2 every time you restart MATLAB, but once the folder is in the search path, you can run multiple instances of simsMVA

If you want to permanently add the folder to your search path, you can go to MATLAB’s “Home” tab and click on “Set path” (This will require admin rights)

addpath3

 

Updates 11/06/2018

Thanks to your valuable feedback, the newest version of simsMVA contains several bug fixes and additional features, with main highlights:

i) Improved 3D viewer and 3D overlay modes (Both now also work for the original variables and not only PCA/NMF components)

overview3d

ii) Automated video maker for slices

slicevideoslicez

 

iii) Loadings/Spectra grid option

loadingsgrid

 

Download simsMVA at https://mvatools.com/try-simsmva/