title: TXM-Wizard: a program for advanced data collection and evaluation in full-field transmission X-ray microscopy.
abstract: Transmission X-ray microscopy (TXM) has been well recognized as a powerful tool for non-destructive investigation of the three-dimensional inner structure of a sample with spatial resolution down to a few tens of nanometers, especially when combined with synchrotron radiation sources. Recent developments of this technique have presented a need for new tools for both system control and data analysis. Here a software package developed in MATLAB for script command generation and analysis of TXM data is presented. The first toolkit, the script generator, allows automating complex experimental tasks which involve up to several thousand motor movements. The second package was designed to accomplish computationally intense tasks such as data processing of mosaic and mosaic tomography datasets; dual-energy contrast imaging, where data are recorded above and below a specific X-ray absorption edge; and TXM X-ray absorption near-edge structure imaging datasets. Furthermore, analytical and iterative tomography reconstruction algorithms were implemented. The compiled software package is freely available.
authors.affiliation: Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, 2575 Sand Hill Road, Menlo Park, CA 94025, USA.
authors.forename: Yijin
authors.initials: Y
authors.lastname: Liu
authors.forename: Florian
authors.initials: F
authors.lastname: Meirer
authors.forename: Phillip A
authors.initials: PA
authors.lastname: Williams
authors.forename: Junyue
authors.initials: J
authors.lastname: Wang
authors.forename: Joy C
authors.initials: JC
authors.lastname: Andrews
authors.forename: Piero
authors.initials: P
authors.lastname: Pianetta
mesh_terms: D003625:Data Collection; D004577:Electron Probe Microanalysis / Q000379:methods*; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D021621:Imaging, Three-Dimensional / Q000379:methods; D012984:Software; D017356:Synchrotrons; D014057:Tomography, X-Ray Computed / Q000379:methods; D056928:X-Ray Absorption Spectroscopy / Q000379:methods