Getting started

Installing ParticleSpy

Install ParticleSpy

The easiest way to install the latest stable build of ParticleSpy is either via conda or pip. This will install the package and its dependencies. You can do this by typing one of the following in to the command line:

$ conda install particlespy
    $ pip install particlespy

Installing from Github

If you would like to use a development version of ParticleSpy downloaded from Github you need to have a python environment with Hyperspy installed. Full instructions for Hyperpsy installation can be found at http://hyperspy.org/hyperspy-doc/v1.3/user_guide/install.html.

You then need to install from the git repository using git. If you have git installed you can use the following command to install the package.

$ pip install -e git+https://github.com/ePSIC-DLS/particlespy

Using ParticleSpy

In order to use ParticleSpy you must first import the api by entering the following in a python console / Jupyter notebook:

>>> import particlespy.api as ps

You are then able to start using the functionality of ParticleSpy. If you already have an image loaded as a Hyperspy signal object you can now use the SegUI function to choose segmentation parameters.

>>> ps.seg_ui(image)

This will pop up a QT window in which you can try different segmentation parameters. Once you are happy with the parameters press Update one last time in order to save the current parameters. You can then load these parameters in to a parameters object by doing the following:

>>> params = ps.parameters()
>>> params.load()

You can now use the chosen parameters to do your particle analysis:

>>> particles = ps.particle_analysis(image,params)

The variable particles is now assigned to a particle list object which contains data on all of the segmented particles.

Saving and Loading Particles

Once you have a segmented particles list this can be saved to disk as follows:

>>> particles.save(filename)

Once saved, a particles list can be loaded from a saved file by using the load() function.

>>> particles = ps.load(filename)

For further examples of using the package you can view the example Jupyter notebook here.