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

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'.

Correlative X-ray and neutron tomography of root systems using cadmium fiducial markers.

The interactions between plant roots and soil are an area of active research, particularly in terms of water and nutrient uptake. Because noninvasive, in vivo studies are required, tomographic imaging appears an obvious method to use, but no one imaging modality is well suited to capture the complete system. X-ray imaging gives clear insight to soil structure and composition; however, water is comparatively transparent to X-rays and biological matter also displays poor contrast with respect to the pores between soil particles. Neutron imaging presents a complementary view where water and biological matter are better distinguished but the soil minerals are not imaged as clearly as they would be with X-rays. This work aims to develop robust methods for complementary X-ray/neutron tomographic imaging of plant root samples which should lead to new insight into water and nutrient transport in soil. The key challenges of this project are to develop experiments that will meet the requirements of both imaging modalities as well as the biological requirements of the plant samples and to develop ways to register a pair of reconstructed volume images of a sample that will typically have been produced with entirely separate facilities. The use of cadmium fiducial markers for registration has been investigated. Simulations were conducted to investigate the expected registration accuracy as the quantity and distribution of the markers varied. The findings of these simulations were then tested experimentally as plant samples were grown and imaged using neutrons with the IMAT instrument at ISIS Neutron and Muon Source at the STFC Rutherford Appleton Laboratory in Harwell, and with X-rays at µ-VIS X-ray Imaging Centre at the University of Southampton. LAY DESCRIPTION: The interactions between plant roots and soil are an area of active research, particularly in terms of water and nutrient uptake. The samples used in this research are typically imaged so that they can be studied without digging up the roots and destroying the sample in the process. X-ray and neutron imaging techniques have both been used as each can show different materials within the sample. Because neither can show all the components of the system by itself, this work explores methods for combining scans of the same sample to give a more complete image of the system. In particular this work focusses on the use of fiducial markers as a strategy for preparing the samples in such a way that the resulting images can be aligned. The effectiveness of this method was tested in simulation and then in practice. The samples used within this work were imaged using neutrons on the IMAT instrument at ISIS Neutron and Muon Source at the STFC Rutherford Appleton Laboratory in Harwell, and with X-rays at µ-VIS X-ray Imaging Centre at the University of Southampton.

Exploring the potential of neutron imaging for life sciences on IMAT.

Neutron imaging has been employed in life sciences in recent years and has proven to be a viable technique for studying internal features without compromising integrity and internal structure of samples in addition to being complementary to other methods such as X-ray or magnetic resonance imaging. Within the last decade, a neutron imaging beamline, IMAT, was designed and built at the ISIS Neutron and Muon Source, UK, to meet the increasing demand for neutron imaging applications in various fields spanning from materials engineering to biology. In this paper, we present the first neutron imaging experiments on different biological samples during the scientific commissioning of the IMAT beamline mainly intended to explore the beamline's capabilities and its potential as a noninvasive investigation tool in fields such as agriculture (soil-plants systems), palaeontology and dentistry. LAY DESCRIPTION: Neutrons form a highly penetrating radiation passing through matter without damaging or structurally modifying it, a property that makes them the ideal tool for many kinds of complementary material investigations. Moreover, the strong interaction of neutrons with hydrogen and their ability to distinguish between hydrogen and deuterium with no radiation damage make neutrons a good probe for imaging biological specimens. The recent technological developments of sources and detectors improved the capabilities of neutron imaging instruments and also have facilitated the use of neutron imaging on a much wider scale than before. Neutron imaging is proving its advantages as being complementary to other known methods of investigation such as X-ray imaging or magnetic resonance imaging and it is no surprise that it is not only employed in engineering or archaeology, but also in life sciences. This definitely opens new perspectives for a more interdisciplinary approach in contemporary science. Within the last decade a neutron imaging beamline, IMAT, was designed and built at the ISIS Neutron and Muon Source, UK, to meet the increasing demands of researchers from different fields, spanning from materials engineering to biology. The results presented here, acquired from first measurements on different biological samples during the scientific commissioning of IMAT beamline show the instrument capability and its suitability to palaeontology, agriculture (soil-plants systems) or dentistry applications.

Design and Characterisation of Metallic Glassy Alloys of High Neutron Shielding Capability.

This paper reports the design, making and characterisation of a series of Fe-based bulk metallic glass alloys with the aim of achieving the combined properties of high neutron absorption capability and sufficient glass forming ability. Synchrotron X-ray diffraction and pair distribution function methods were used to characterise the crystalline or amorphous states of the samples. Neutron transmission and macroscopic attenuation coefficients of the designed alloys were measured using energy resolved neutron imaging method and the very recently developed microchannel plate detector. The study found that the newly designed alloy (Fe48Cr15Mo14C15B6Gd2 with a glass forming ability of Ø5.8 mm) has the highest neutron absorption capability among all Fe-based bulk metallic glasses so far reported. It is a promising material for neutron shielding applications.