XCCA - Revision history

KevinYager: Redirected page to Correlation methods

2016-11-23T22:41:59Z

Redirected page to Correlation methods

KevinYager: /* See Also */

2016-11-12T01:08:35Z

‎See Also

KevinYager: /* Reconstruction */

2016-11-12T01:04:00Z

‎Reconstruction

KevinYager: /* Reconstruction */

2016-11-12T00:38:27Z

‎Reconstruction

KevinYager: /* Reconstruction */

2016-11-11T23:42:43Z

‎Reconstruction

KevinYager: /* XFEL */

2016-11-11T23:40:29Z

‎XFEL

KevinYager at 23:11, 11 November 2016

2016-11-11T23:11:30Z

KevinYager: /* References */

2016-11-11T23:07:47Z

‎References

KevinYager: /* References */

2016-11-11T23:06:29Z

‎References

KevinYager: /* Reconstruction */

2016-11-11T23:06:11Z

‎Reconstruction

← Older revision		Revision as of 22:41, 23 November 2016
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−	~~'''X-ray cross-correlation analysis''' ('''XCCA''') is a suite of techniques for analyzing correlations within~~ [[x-ray]] [[scattering]] datasets. In particular, analysis of angular correlations within the 2D detector image can be used to isolate structural information that would be lost in a conventional circular-averaged 1D curve. Thus, even for nominally isotropic materials (powder-like sample), information about local symmetry (and thus packing motifs or [[unit cell]]) can be extracted from the data.	+	#REDIRECT [[Correlation methods]]
−
−	Angular correlation information can also be mined to reconstruct the three-dimensional [[reciprocal-space]] from individual 2D detector snapshots. That is, XCCA methods can be exploited to co-align scattering frames, registering them into the 3D [[scattering]] volume. This is conceptually similar to [[reciprocal-space mapping]], but instead of directly reconstructing reciprocal-space by merging images, this is done in a statistical sense (because the relative alignment of frames is not known).
−
−	~~==References==~~
−
−	~~===XCCA===~~
−	* Peter Wochner, Christian Gutt, Tina Autenrieth, Thomas Demmer, Volodymyr Bugaev, Alejandro Díaz Ortiz, Agnès Duri, Federico Zontone, Gerhard Grübel and Helmut Dosch [http://www.pnas.org/content/106/28/11511.abstract X-ray cross correlation analysis uncovers hidden local symmetries in disordered matter] ''Proceedings of the National Academy of Sciences'' '''2009''', 106 (28), 11511–11514. [http://dx.doi.org/10.1073/pnas.0905337106 doi: 10.1073/pnas.0905337106]
−	* M. Altarelli, R. P. Kurta, and I. A. Vartanyants [http://journals.aps.org/prb/abstract/10.1103/PhysRevB.82.104207 X-ray cross-correlation analysis and local symmetries of disordered systems: General theory] ''Phys. Rev. B.'' '''2010''', 82, 104207. [http://dx.doi.org/10.1103/PhysRevB.82.104207 doi: 10.1103/PhysRevB.82.104207]
−	* R. P. Kurta, M. Altarelli, E. Weckert, and I. A. Vartanyants [http://journals.aps.org/prb/abstract/10.1103/PhysRevB.85.184204 X-ray cross-correlation analysis applied to disordered two-dimensional systems] ''Phys. Rev. B'' '''2012''', 85, 184204. [http://dx.doi.org/10.1103/PhysRevB.85.184204 doi: 10.1103/PhysRevB.85.184204]
−	* R P Kurta, R Dronyak, M Altarelli, E Weckert and I A Vartanyants [http://iopscience.iop.org/article/10.1088/1367-2630/15/1/013059/meta Solution of the phase problem for coherent scattering from a disordered system of identical particles] ''New Journal of Physics'' '''2013''', 15. [http://dx.doi.org/10.1088/1367-2630/15/1/013059 doi: 10.1088/1367-2630/15/1/013059]
−	* F. Lehmkühler, G. Grübel and C. Gutt [http://scripts.iucr.org/cgi-bin/paper?S1600576714012424 Detecting orientational order in model systems by X-ray cross-correlation methods] ~~''J. Appl. Cryst.'' '''2014''', 47, 1315-1323. [https://doi.org/10.1107/S1600576714012424 doi: 10.1107/S1600576714012424]~~
−	* Lehmkühler, F.; Fischer, B.; Müller, L.; Ruta B.; Grübel, G. [http://scripts.iucr.org/cgi-bin/paper?zg5001 Structure beyond pair correlations: X-ray cross-correlation from colloidal crystals] ''Journal of Applied Crystallography'' '''2016''', 49, [https://doi.org/10.1107/S1600576716017313 doi: 10.1107/S1600576716017313]
−
−	~~===Reconstruction===~~
−	* Zvi Kam [http://www.sciencedirect.com/science/article/pii/0022519380900880 The Reconstruction of Structure from Electron Micrographs of Randomly Oriented Particles] ;;Journal of Theoretical Biology'' '''1980''', 82 (1), 15-39. [http://dx.doi.org/10.1016/0022-5193(80)90088-0 doi: 10.1016/0022-5193(80)90088-0]
−	* Richard A. Kirian, Kevin E. Schmidt, Xiaoyu Wang, R. Bruce Doak, and John C. H. Spence [http://journals.aps.org/pre/abstract/10.1103/PhysRevE.84.011921 Signal, noise, and resolution in correlated fluctuations from snapshot small-angle x-ray scattering] ''Phys. Rev. E'' '''2011''', 84, 011921. [http://dx.doi.org/10.1103/PhysRevE.84.011921 doi: 10.1103/PhysRevE.84.011921]
−	* G. Chen, M. A. Modestino, B. K. Poon, A. Schirotzek, S. Marchesini, R. A. Segalman, A. Hexemer and P. H. Zwart [http://scripts.iucr.org/cgi-bin/paper?S0909049512023801 Structure determination of Pt-coated Au dumbbells via fluctuation X-ray scattering] ''J. Synchrotron Radiation'' '''2012''', 19, 695-700. [http://dx.doi.org/10.1107/S0909049512023801 doi: 10.1107/S0909049512023801]
−	~~===Sparse Data===~~
−	* K Ayyer, HT Philipp, MW Tate, JL Wierman, V Elser, SM Gruner [http://journals.iucr.org/m/issues/2015/01/00/dc5003/index.html Determination of crystallographic intensities from sparse data] ''IUCrJ'' '''2015''', 2 (1), 29-34. [http://dx.doi.org/10.1107/S2052252514022313 doi: 10.1107/S2052252514022313]
−	* Wierman JL, Lan TY, Tate MW, Philipp HT, Elser V, Gruner SM [http://journals.iucr.org/m/issues/2016/01/00/ro5005/ Protein crystal structure from non-oriented, single-axis sparse X-ray data] ''IUCrJ'' '''2016''', 3 (1), 43-50. [http://dx.doi.org/10.1107/S2052252515018795 doi: 10.1107/S2052252515018795]
−
−	~~===[[XFEL]]===~~
−	* Derek Mendez, Herschel Watkins, Shenglan Qiao, Kevin S. Raines, Thomas J. Lane, Gundolf Schenk, Garrett Nelson, Ganesh Subramanian, Kensuke Tono, Yasumasa Joti, Makina Yabashi, Daniel Ratner and Sebastian Doniach [http://journals.iucr.org/m/issues/2016/06/00/cw5011/index.html Angular correlations of photons from solution diffraction at a free-electron laser encode molecular structure] ''IUCrJ'' '''2016''', 3(6), 420-429. [http://dx.doi.org/10.1107/S2052252516013956 doi: 10.1107/S2052252516013956]
−
−	~~==See Also==~~
−	* [[X-ray Photon Correlation Spectroscopy]] ([[XPCS]])
−	* [[Fluctuation X-ray Scattering]] (FXS)
−	* [[Variance Scattering]] (VS)
−	** [[Ring graininess]] analysis (to determine grain count, grain size and size-distribution, crystallinity, etc.)
−	*** [[Yager, K.G.]]; Majewski, P.W. [http://scripts.iucr.org/cgi-bin/paper?S1600576714020822 Metrics of graininess: robust quantification of grain count from the non-uniformity of scattering rings] ''Journal of Applied Crystallography'' '''2014''', 47, 1855–1865. [http://dx.doi.org/10.1107/S1600576714020822 doi: 10.1107/S1600576714020822]
−	** Heterogeneity
−	*** C. J. Gommes [http://scripts.iucr.org/cgi-bin/paper?ge5024 Small-angle scattering and scale-dependent heterogeneity] ''J. Appl. Cryst.'' '''2016''', 49, 1162-1176. [https://doi.org/10.1107/S1600576716007810 doi: 10.1107/S1600576716007810]

← Older revision		Revision as of 01:08, 12 November 2016
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	** [[Ring graininess]] analysis (to determine grain count, grain size and size-distribution, crystallinity, etc.)		** [[Ring graininess]] analysis (to determine grain count, grain size and size-distribution, crystallinity, etc.)
	*** [[Yager, K.G.]]; Majewski, P.W. [http://scripts.iucr.org/cgi-bin/paper?S1600576714020822 Metrics of graininess: robust quantification of grain count from the non-uniformity of scattering rings] ''Journal of Applied Crystallography'' '''2014''', 47, 1855–1865. [http://dx.doi.org/10.1107/S1600576714020822 doi: 10.1107/S1600576714020822]		*** [[Yager, K.G.]]; Majewski, P.W. [http://scripts.iucr.org/cgi-bin/paper?S1600576714020822 Metrics of graininess: robust quantification of grain count from the non-uniformity of scattering rings] ''Journal of Applied Crystallography'' '''2014''', 47, 1855–1865. [http://dx.doi.org/10.1107/S1600576714020822 doi: 10.1107/S1600576714020822]
		+	** Heterogeneity
		+	*** C. J. Gommes [http://scripts.iucr.org/cgi-bin/paper?ge5024 Small-angle scattering and scale-dependent heterogeneity] ''J. Appl. Cryst.'' '''2016''', 49, 1162-1176. [https://doi.org/10.1107/S1600576716007810 doi: 10.1107/S1600576716007810]

@@ Line 17: / Line 17: @@
 * Richard A. Kirian, Kevin E. Schmidt, Xiaoyu Wang, R. Bruce Doak, and John C. H. Spence [http://journals.aps.org/pre/abstract/10.1103/PhysRevE.84.011921 Signal, noise, and resolution in correlated fluctuations from snapshot small-angle x-ray scattering] ''Phys. Rev. E'' '''2011''', 84, 011921. [http://dx.doi.org/10.1103/PhysRevE.84.011921 doi: 10.1103/PhysRevE.84.011921]
 * G. Chen, M. A. Modestino, B. K. Poon, A. Schirotzek, S. Marchesini, R. A. Segalman, A. Hexemer and P. H. Zwart [http://scripts.iucr.org/cgi-bin/paper?S0909049512023801 Structure determination of Pt-coated Au dumbbells via fluctuation X-ray scattering] ''J. Synchrotron Radiation'' '''2012''', 19, 695-700. [http://dx.doi.org/10.1107/S0909049512023801 doi: 10.1107/S0909049512023801]
 * Wierman JL, Lan TY, Tate MW, Philipp HT, Elser V, Gruner SM [http://journals.iucr.org/m/issues/2016/01/00/ro5005/ Protein crystal structure from non-oriented, single-axis sparse X-ray data] ''IUCrJ'' '''2016''', 3 (1), 43-50.  [http://dx.doi.org/10.1107/S2052252515018795 doi: 10.1107/S2052252515018795]

@@ Line 17: / Line 17: @@
 * Richard A. Kirian, Kevin E. Schmidt, Xiaoyu Wang, R. Bruce Doak, and John C. H. Spence [http://journals.aps.org/pre/abstract/10.1103/PhysRevE.84.011921 Signal, noise, and resolution in correlated fluctuations from snapshot small-angle x-ray scattering] ''Phys. Rev. E'' '''2011''', 84, 011921. [http://dx.doi.org/10.1103/PhysRevE.84.011921 doi: 10.1103/PhysRevE.84.011921]
 * G. Chen, M. A. Modestino, B. K. Poon, A. Schirotzek, S. Marchesini, R. A. Segalman, A. Hexemer and P. H. Zwart [http://scripts.iucr.org/cgi-bin/paper?S0909049512023801 Structure determination of Pt-coated Au dumbbells via fluctuation X-ray scattering] ''J. Synchrotron Radiation'' '''2012''', 19, 695-700. [http://dx.doi.org/10.1107/S0909049512023801 doi: 10.1107/S0909049512023801]
 ===[[XFEL]]===

@@ Line 16: / Line 16: @@
 * Zvi Kam [http://www.sciencedirect.com/science/article/pii/0022519380900880 The Reconstruction of Structure from Electron Micrographs of Randomly Oriented Particles] ;;Journal of Theoretical Biology'' '''1980''', 82 (1), 15-39. [http://dx.doi.org/10.1016/0022-5193(80)90088-0 doi: 10.1016/0022-5193(80)90088-0]
 * Richard A. Kirian, Kevin E. Schmidt, Xiaoyu Wang, R. Bruce Doak, and John C. H. Spence [http://journals.aps.org/pre/abstract/10.1103/PhysRevE.84.011921 Signal, noise, and resolution in correlated fluctuations from snapshot small-angle x-ray scattering] ''Phys. Rev. E'' '''2011''', 84, 011921. [http://dx.doi.org/10.1103/PhysRevE.84.011921 doi: 10.1103/PhysRevE.84.011921]
 ===[[XFEL]]===

@@ Line 18: / Line 18: @@
 ===[[XFEL]]===
-* TBD
+* Derek Mendez, Herschel Watkins, Shenglan Qiao, Kevin S. Raines, Thomas J. Lane, Gundolf Schenk, Garrett Nelson, Ganesh Subramanian, Kensuke Tono, Yasumasa Joti, Makina Yabashi, Daniel Ratner and Sebastian Doniach [http://journals.iucr.org/m/issues/2016/06/00/cw5011/index.html Angular correlations of photons from solution diffraction at a free-electron laser encode molecular structure] ''IUCrJ'' '''2016''', 3(6), 420-429. [http://dx.doi.org/10.1107/S2052252516013956 doi: 10.1107/S2052252516013956]
 ==See Also==

← Older revision		Revision as of 23:11, 11 November 2016
Line 1:		Line 1:
	'''X-ray cross-correlation analysis''' ('''XCCA''') is a suite of techniques for analyzing correlations within [[x-ray]] [[scattering]] datasets. In particular, analysis of angular correlations within the 2D detector image can be used to isolate structural information that would be lost in a conventional circular-averaged 1D curve. Thus, even for nominally isotropic materials (powder-like sample), information about local symmetry (and thus packing motifs or [[unit cell]]) can be extracted from the data.		'''X-ray cross-correlation analysis''' ('''XCCA''') is a suite of techniques for analyzing correlations within [[x-ray]] [[scattering]] datasets. In particular, analysis of angular correlations within the 2D detector image can be used to isolate structural information that would be lost in a conventional circular-averaged 1D curve. Thus, even for nominally isotropic materials (powder-like sample), information about local symmetry (and thus packing motifs or [[unit cell]]) can be extracted from the data.
		+
		+	Angular correlation information can also be mined to reconstruct the three-dimensional [[reciprocal-space]] from individual 2D detector snapshots. That is, XCCA methods can be exploited to co-align scattering frames, registering them into the 3D [[scattering]] volume. This is conceptually similar to [[reciprocal-space mapping]], but instead of directly reconstructing reciprocal-space by merging images, this is done in a statistical sense (because the relative alignment of frames is not known).

	==References==		==References==

@@ Line 2: / Line 2: @@
 ==References==
 ===XCCA===
@@ Line 13: / Line 10: @@
 * F. Lehmkühler, G. Grübel and C. Gutt [http://scripts.iucr.org/cgi-bin/paper?S1600576714012424 Detecting orientational order in model systems by X-ray cross-correlation methods] ''J. Appl. Cryst.'' '''2014''', 47, 1315-1323. [https://doi.org/10.1107/S1600576714012424 doi: 10.1107/S1600576714012424]
 * Lehmkühler, F.; Fischer, B.; Müller, L.; Ruta B.; Grübel, G. [http://scripts.iucr.org/cgi-bin/paper?zg5001 Structure beyond pair correlations: X-ray cross-correlation from colloidal crystals] ''Journal of Applied Crystallography'' '''2016''', 49, [https://doi.org/10.1107/S1600576716017313 doi: 10.1107/S1600576716017313]
 ==See Also==

@@ Line 4: / Line 4: @@
 ===Reconstruction===
 * Zvi Kam [http://www.sciencedirect.com/science/article/pii/0022519380900880 The Reconstruction of Structure from Electron Micrographs of Randomly Oriented Particles] ;;Journal of Theoretical Biology'' '''1980''', 82 (1), 15-39. [http://dx.doi.org/10.1016/0022-5193(80)90088-0 doi: 10.1016/0022-5193(80)90088-0]
 ===XCCA===
 * Peter Wochner, Christian Gutt, Tina Autenrieth, Thomas Demmer, Volodymyr Bugaev, Alejandro Díaz Ortiz, Agnès Duri, Federico Zontone, Gerhard Grübel and Helmut Dosch [http://www.pnas.org/content/106/28/11511.abstract X-ray cross correlation analysis uncovers hidden local symmetries in disordered matter] ''Proceedings of the National Academy of Sciences'' '''2009''', 106 (28), 11511–11514. [http://dx.doi.org/10.1073/pnas.0905337106 doi: 10.1073/pnas.0905337106]