Formulation of perfect-crystal diffraction from Takagi-Taupin equations: numerical implementation in the crystalpy library.

The Takagi-Taupin equations are solved in their simplest form (zero deformation) to obtain the Bragg-diffracted and transmitted complex amplitudes. The case of plane-parallel crystal plates is discussed using a matrix model. The equations are implemented in an open-source Python library crystalpy adapted for numerical applications such as crystal reflectivity calculations and ray tracing.

X-ray focusing by bent crystals: focal positions as predicted by the crystal lens equation and the dynamical diffraction theory.

The location of the beam focus when monochromatic X-ray radiation is diffracted by a thin bent crystal is predicted by the `crystal lens equation'. This equation is derived in a general form valid for Bragg and Laue geometries. It has little utility for diffraction in Laue geometry. The focusing effect in the Laue symmetrical case is discussed using concepts of dynamical theory and an extension of the lens equation is proposed. The existence of polychromatic focusing is considered and the feasibility of matching the polychromatic and monochromatic focal positions is discussed.

Translative lens-based full-field coherent X-ray imaging.

A full-field coherent imaging approach suitable for hard X-rays based on a classical (i.e. Galilean) X-ray microscope is described. The method combines a series of low-resolution images acquired at different transverse lens positions into a single high-resolution image, overcoming the spatial resolution limit set by the numerical aperture of the objective lens. The optical principles of the approach are described, the successful reconstruction of simulated phantom data is demonstrated, and aspects of the reconstruction are discussed. The authors believe that this approach offers some potential benefits over conventional scanning X-ray ptychography in terms of spatial bandwidth and radiation dose rate.

Gauging low-dose X-ray phase-contrast imaging at a single and large propagation distance.

The interactions of a beam of hard and spatio-temporally coherent X-rays with a soft-matter sample primarily induce a transverse distribution of exit phase variations δϕ (retardations or advancements in pieces of the wave front exiting the object compared to the incoming wave front) whose free-space propagation over a distance z gives rise to intensity contrast gz. For single-distance image detection and |δϕ| ≪ 1 all-order-in-z phase-intensity contrast transfer is linear in δϕ. Here we show that ideal coherence implies a decay of the (shot-)noise-to-signal ratio in gz and of the associated phase noise as z(-1/2) and z(-1), respectively. Limits on X-ray dose thus favor large values of z. We discuss how a phase-scaling symmetry, exact in the limit δϕ → 0 and dynamically unbroken up to |δϕ| ∼ 1, suggests a filtering of gz in Fourier space, preserving non-iterative quasi-linear phase retrieval for phase variations up to order unity if induced by multi-scale objects inducing phase variations δϕ of a broad spatial frequency spectrum. Such an approach continues to be applicable under an assumed phase-attenuation duality. Using synchrotron radiation, ex and in vivo microtomography on frog embryos exemplifies improved resolution compared to a conventional single-distance phase-retrieval algorithm.

Optimized x-ray multilayer mirrors for single nanometer focusing.

We present numerical simulations optimizing the layer shapes of curved focusing x-ray multilayer mirrors deployed at synchrotron radiation facilities using a wave-optical model. The confocal elliptical shapes of the inner layers are corrected for refraction based on the modified Bragg law. Simulated wave amplitudes are further propagated to the focal region, promising nanometer focusing.

Wave-optical theory of nanofocusing x-ray multilayer mirrors.

We have derived a wave-optical model of curved nanofocusing x-ray multilayer mirrors used at synchrotron radiation sources, using a Takagi-Taupin-like approach. In a first approximation, the individual layers are assumed to be confocal elliptical. This assumption leads to a convenient spatial description in elliptical coordinates. As a first optimization, we study a rotation-like modification and compare numerical simulations to established results for planar multilayers.

Quantitative comparison of direct phase retrieval algorithms in in-line phase tomography.

A well-known problem in x-ray microcomputed tomography is low sensitivity. Phase contrast imaging offers an increase of sensitivity of up to a factor of 10(3) in the hard x-ray region, which makes it possible to image soft tissue and small density variations. If a sufficiently coherent x-ray beam, such as that obtained from a third generation synchrotron, is used, phase contrast can be obtained by simply moving the detector downstream of the imaged object. This setup is known as in-line or propagation based phase contrast imaging. A quantitative relationship exists between the phase shift induced by the object and the recorded intensity and inversion of this relationship is called phase retrieval. Since the phase shift is proportional to projections through the three-dimensional refractive index distribution in the object, once the phase is retrieved, the refractive index can be reconstructed by using the phase as input to a tomographic reconstruction algorithm. A comparison between four phase retrieval algorithms is presented. The algorithms are based on the transport of intensity equation (TIE), transport of intensity equation for weak absorption, the contrast transfer function (CTF), and a mixed approach between the CTF and TIE, respectively. The compared methods all rely on linearization of the relationship between phase shift and recorded intensity to yield fast phase retrieval algorithms. The phase retrieval algorithms are compared using both simulated and experimental data, acquired at the European Synchrotron Radiation Facility third generation synchrotron light source. The algorithms are evaluated in terms of two different reconstruction error metrics. While being slightly less computationally effective, the mixed approach shows the best performance in terms of the chosen criteria.

Mixed transfer function and transport of intensity approach for phase retrieval in the Fresnel region.

We present a method for phase retrieval in propagation-based x-ray imaging, based on the contrast transfer and transport of intensity equation approaches. We show that the contrast transfer model does not coincide with the transport of intensity in the limit of small propagation distances, and we derive a new model that alleviates this problem. Using this model, we devise an algorithm to retrieve the phase from slowly varying samples that is valid beyond the limit of small distances. We show its utility by imaging in three dimensions a biological sample that causes both strong absorption and phase shift.

The partial Talbot effect and its use in measuring the coherence of synchrotron X-rays.

The Talbot effect is the self-imaging, at distances D multiple of D(R), of the intensity downstream of a periodic object. Earlier work with hard synchrotron radiation X-rays showed the variation with D of the fundamental Fourier component of intensity to be a good measurement of beam coherence. Any higher-order Fourier coefficients I (D, m > 1) would be periodic with a reduced period D(Rm) = D(R)/m for an ideally coherent incident beam (partial Talbot effect). The degree of coherence gamma(x) is sampled through the ratio of I (D, m) at D = 0 and multiples of D(Rm). This requires the Fourier coefficient for D = 0, which is not accessible for a phase object (no contrast at D = 0). However, the ratio of the slopes of I (D, m) at D = 0 and D = pD(Rm) also provides this information. Furthermore, a characterization of gamma(x) is possible, provided an assumption is made on its shape, using only the ratio of the Fourier coefficient I (D, m) of two images a distance pD(Rm) apart. Experiments with one- and two-dimensional phase gratings and a mixed (amplitude and phase) two-dimensional grating confirm that the partial Talbot effect approach is viable. It requires a reduced range of distances, and yields important results directly, obviating the need for computer fits. In particular, 8% of the beam intensity was found to have very low coherence in the vertical direction, probably due to monochromator imperfection.