|Latest version||v1.0.1 (27. Jun 2016)|
The ParticleSizer script was developed to automatically measures the distributions of the characteristic size and shape properties of a nanomaterial. In the scope of implementing the European Commission definition of a nanomaterial, the minimal external dimension of the primary particles of a particulate material is assessed as the minimal feret diameter from electron microscopy images. Other size and shape parameters are measured simultaneously.
It is recommended to install R to get better plots. When this point is skipped, a stripped-down plot will be shown:
- Download the latest R: https://cran.uni-muenster.de/
- Download the Rserver package: https://rforge.net/bin/windows/contrib/3.0/Rserve_1.8-0.zip
- Download the MASS package: https://cran.r-project.org/bin/windows/contrib/3.2/MASS_7.3-45.zip
- Start R and select the packages downloaded in 5.2 and 5.3 via "Start Packages -> Install packages from local zip files"
You can now start the ParticleSizer via Plugins -> NanoDefine -> ParticleSizer
- Circular window radius: This is a parameter of the local thresholding technique. The ParticleSizer does not use a global threshold to binarize the image. Instead it uses a local threshold which is estimated for a specific circular region with the configured radius.
- Rolling ball radius: The background is removed by rolling a ball with this radius over the surface (intensity interpreded as hight) of the image. It should be at least as large as the largest object in image which does not belongs to the background.
- Min. OTB intensity difference: Objects which have an object-to-background (OTB) intensity difference in the noise-reduced and background subtracted image lower than this threshold are considered as artefacts and are removed.
- Use watershed for irregular structures: If selected, the mode for irregular structures is used.
- Irregular watershed convexity threshold: The threshold determines, when splitted agglomerated is counted as “primary particle”. If the convexity of particle is greater than this threshold, the splitting is stopped for this object. If the convexity is smaller than this value, then the ParticleSizer tries to split the particle again
- Use single particle mode: If selected, the single particle mode is used.
- Use ellipse fitting mode: If selected, the ellipse fitting mode is used.
Gold 8 nm, Settings: Default
Gold 8 nm, Settings: +Ellipse fitting mode
Gold 10 nm, Settings: +Min. OTB difference=30
How to cite
You can use Zenodo to cite the lastest release of the ParticleSizer: https://zenodo.org/badge/latestdoi/18649/thorstenwagner/ij-particlesizer
As example: Thorsten Wagner. (2016). ij-particlesizer: ParticleSizer 1.0.0. Zenodo. 10.5281/zenodo.56427