This folder contains example code for applying a two-step reconstruction of widely differing particle concentrations in magnetic particle imaging (MPI). The method combines two reconstructions with suitable parameters in order to cope with the different concentrations.
The method is described in the associated publication
M. Boberg, N. Gdaniec, P. Szwargulski, F. Werner, M. Möddel, and T. Knopp. (2021). Simultaneous imaging of widely differing particle concentrations in MPI: problem statement and algorithmic proposal for improvement. Physics in Medicine & Biology, 66(9), 095004. doi: 10.1088/1361-6560/abf202.
A second version is described in the proceedings article
M. Boberg and T. Knopp. (2022). Two-Step Reconstruction with Spatially Adaptive Regularization for Increasing the Dynamic Range in MPI. International journal on magnetic particle imaging 8(1). doi: 10.18416/IJMPI.2022.2203044.
In order to use this code one first has to download Julia (version 1.7 or later), clone this repository and navigate to the folder in the command line. The example scripts automatically activate the environment and install all necessary packages.
After installation the example code can be executed by running julia and entering
include("example.jl")for the initial method using a raw-data manipulation or
include("example_spatialRegularization.jl")for the second method using a spatially adaptive regularization. This will first download all data and then perform a reconstruction. Parameters of the reconstruction are documented in the Julia script and can be changed. After the reconstruction is done, the script will open a plotting window and show the reconstruction result.
The measurement data associated to this project is about 2.1 GB large and will be downloaded and stored automatically, when the code is executed for the first time. It is published under a Creative Commons Attribution 4.0 International license and can be found here:
