A customizable software for fast reduction and analysis of large X-ray scattering data sets: applications of the new DPDAK package to small-angle X-ray scattering and grazing-incidence small-angle X-ray scattering

被引:286
作者
Benecke, Gunthard [1 ,2 ]
Wagermaier, Wolfgang [2 ]
Li, Chenghao [2 ]
Schwartzkopf, Matthias [1 ]
Flucke, Gero [1 ]
Hoerth, Rebecca [2 ,3 ]
Zizak, Ivo [4 ]
Burghammer, Manfred [5 ,6 ]
Metwalli, Ezzeldin [7 ]
Mueller-Buschbaum, Peter [7 ]
Trebbin, Martin [8 ]
Foerster, Stephan [8 ]
Paris, Oskar [2 ,9 ]
Roth, Stephan V. [1 ]
Fratzl, Peter [2 ]
机构
[1] Deutsch Elektronen Synchrotron DESY, PETRA III, D-22607 Hamburg, Germany
[2] Max Planck Inst Colloids & Interfaces, Dept Biomat, D-14476 Potsdam, Brandenbug, Germany
[3] Charite, Berlin Brandenburg Sch Regenerat Therapies BSRT, D-13353 Berlin, Germany
[4] Helmholtz Zentrum Berlin Mat & Energie HZB, BESSY II, Inst Nanometeropt & Technol, D-12489 Berlin, Germany
[5] European Synchrotron Radiat Facil ESRF, ID13, F-38000 Grenoble, France
[6] Univ Ghent, Dept Analyt Chem, B-9000 Ghent, Belgium
[7] Tech Univ Munich, Lehrstuhl Funkt Mat Pys Dept E13, D-85747 Garching, Germany
[8] Univ Bayreuth, D-95440 Bayreuth, Germany
[9] Univ Leoben, Inst Phys, A-8700 Leoben, Austria
基金
欧洲研究理事会;
关键词
BONE; NANOPARTICLES; DETECTOR; AVENUES; GROWTH; GISAXS;
D O I
10.1107/S1600576714019773
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
X-ray scattering experiments at synchrotron sources are characterized by large and constantly increasing amounts of data. The great number of files generated during a synchrotron experiment is often a limiting factor in the analysis of the data, since appropriate software is rarely available to perform fast and tailored data processing. Furthermore, it is often necessary to perform online data reduction and analysis during the experiment in order to interactively optimize experimental design. This article presents an open-source software package developed to process large amounts of data from synchrotron scattering experiments. These data reduction processes involve calibration and correction of raw data, one-or two-dimensional integration, as well as fitting and further analysis of the data, including the extraction of certain parameters. The software, DPDAK (directly programmable data analysis kit), is based on a plug-in structure and allows individual extension in accordance with the requirements of the user. The article demonstrates the use of DPDAK for on- and offline analysis of scanning small-angle X-ray scattering (SAXS) data on biological samples and microfluidic systems, as well as for a comprehensive analysis of grazing-incidence SAXS data. In addition to a comparison with existing software packages, the structure of DPDAK and the possibilities and limitations are discussed.
引用
收藏
页码:1797 / 1803
页数:7
相关论文
共 38 条
[1]   P03, the microfocus and nanofocus X-ray scattering (MiNaXS) beamline of the PETRA III storage ring: the microfocus endstation [J].
Buffet, Adeline ;
Rothkirch, Andre ;
Doehrmann, Ralph ;
Koerstgens, Volker ;
Abul Kashem, Mottakin M. ;
Perlich, Jan ;
Herzog, Gerd ;
Schwartzkopf, Matthias ;
Gehrke, Rainer ;
Mueller-Buschbaum, Peter ;
Roth, Stephan V. .
JOURNAL OF SYNCHROTRON RADIATION, 2012, 19 :647-653
[2]   HipGISAXS: a high-performance computing code for simulating grazing-incidence X-ray scattering data [J].
Chourou, Slim T. ;
Sarje, Abhinav ;
Li, Xiaoye S. ;
Chan, Elaine R. ;
Hexemer, Alexander .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 2013, 46 :1781-1795
[3]   Scatter: software for the analysis of nano- and mesoscale small-angle scattering [J].
Foerster, S. ;
Apostol, L. ;
Bras, W. .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 2010, 43 :639-646
[4]   Characterization of bone mineral crystals in horse radius by small-angle X-ray scattering [J].
Fratzl, P ;
Schreiber, S ;
Boyde, A .
CALCIFIED TISSUE INTERNATIONAL, 1996, 58 (05) :341-346
[5]   SMALL-ANGLE SCATTERING FROM POROUS AMORPHOUS SUBSTANCES [J].
FRATZL, P ;
VOGL, G ;
KLAUMUNZER, S .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 1991, 24 (pt 5) :588-592
[6]  
Fratzl P, 1996, CONNECT TISSUE RES, V35, P9
[7]  
Glatter O., 1982, SMALL ANGLE XRAY SCA
[8]   Strain dependent structural changes of spider dragline silk [J].
Glisovic, Anja ;
Vehoff, Thorsten ;
Davies, Richard J. ;
Salditt, Tim .
MACROMOLECULES, 2008, 41 (02) :390-398
[9]   Scanning X-ray imaging with small-angle scattering contrast [J].
Gourrier, Aurelien ;
Wagermaier, Wolfgang ;
Burghammer, Manfred ;
Lammie, Donna ;
Gupta, Himadri S. ;
Fratzl, Peter ;
Riekel, Christian ;
Wess, Tim J. ;
Paris, Oskar .
JOURNAL OF APPLIED CRYSTALLOGRAPHY, 2007, 40 :S78-S82
[10]   Hydrodynamic alignment and assembly of nanofibrils resulting in strong cellulose filaments [J].
Hakansson, Karl M. O. ;
Fall, Andreas B. ;
Lundell, Fredrik ;
Yu, Shun ;
Krywka, Christina ;
Roth, Stephan V. ;
Santoro, Gonzalo ;
Kvick, Mathias ;
Wittberg, Lisa Prahl ;
Wagberg, Lars ;
Soderberg, L. Daniel .
NATURE COMMUNICATIONS, 2014, 5