Core Imaging Library - Part I: a versatile Python framework for tomographic imaging

Author:

Jørgensen J. S.12ORCID,Ametova E.34ORCID,Burca G.52ORCID,Fardell G.6ORCID,Papoutsellis E.64ORCID,Pasca E.6ORCID,Thielemans K.7ORCID,Turner M.8ORCID,Warr R.4ORCID,Lionheart W. R. B.2ORCID,Withers P. J.4ORCID

Affiliation:

1. Department of Applied Mathematics and Computer Science, Technical University of Denmark, Kongens Lyngby, Denmark

2. Department of Mathematics, The University of Manchester, Manchester, UK

3. Laboratory for Applications of Synchrotron Radiation, Karlsruhe Institute of Technology, Karlsruhe, Germany

4. Henry Royce Institute, Department of Materials, The University of Manchester, Manchester, UK

5. ISIS Neutron and Muon Source, STFC, UKRI, Rutherford Appleton Laboratory, Didcot, UK

6. Scientific Computing Department, STFC, UKRI, Rutherford Appleton Laboratory, Didcot, UK

7. Institute of Nuclear Medicine and Centre for Medical Image Computing, University College London, London, UK

8. Research IT Services, The University of Manchester, Manchester, UK

Abstract

We present the Core Imaging Library (CIL), an open-source Python framework for tomographic imaging with particular emphasis on reconstruction of challenging datasets. Conventional filtered back-projection reconstruction tends to be insufficient for highly noisy, incomplete, non-standard or multi-channel data arising for example in dynamic, spectral and in situ tomography. CIL provides an extensive modular optimization framework for prototyping reconstruction methods including sparsity and total variation regularization, as well as tools for loading, preprocessing and visualizing tomographic data. The capabilities of CIL are demonstrated on a synchrotron example dataset and three challenging cases spanning golden-ratio neutron tomography, cone-beam X-ray laminography and positron emission tomography. This article is part of the theme issue ‘Synergistic tomographic image reconstruction: part 2’.

Funder

Bundesministerium für Bildung und Forschung

Diamond Light Source

Engineering and Physical Sciences Research Council

Villum Fonden

H2020 European Research Council

ISIS Neutron and Muon Source

Royal Society

Ministerium für Wissenschaft, Forschung und Kunst Baden-Württemberg

Publisher

The Royal Society

Subject

General Physics and Astronomy,General Engineering,General Mathematics

Reference53 articles.

1. Shearing P Turner M Sinclair I Lee P Ahmed F Quinn P Leach R Sun W Warnett J. 2018 EPSRC X-Ray Tomography Roadmap 2018. Available from: https://epsrc.ukri.org/files/research/epsrc-x-ray-tomography-roadmap-2018/.

2. Why do commercial CT scanners still employ traditional, filtered back-projection for image reconstruction?

3. Regularization strategies in statistical image reconstruction of low-dose x-ray CT: A review

4. Ametova E Fardell G Jørgensen JS Papoutsellis E Pasca E. 2021 Releases of Core Imaging Library (CIL). Zenodo . (doi:10.5281/zenodo.4746198)

5. TomoPy: a framework for the analysis of synchrotron tomographic data

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