Mantis: A program for the analysis of x-ray spectromicroscopy data

Journal of Synchrotron Radiation

Volumn 21, Issue 5, 2014, Pages 1206-1212

  Lerotic, Mirna ^a   Mak, Rachel ^b   Wirick, Sue ^c   Meirer, Florian ^d   Jacobsen, Chris ^b,e  

^a 2nd Look Consulting   (Hong Kong)

^b NORTHWESTERN UNIVERSITY   (United States)

^c UNIVERSITY OF CHICAGO   (United States)

^d UTRECHT UNIVERSITY   (Netherlands)

^e ARGONNE NATIONAL LABORATORY   (United States)

Author keywords

NEXAFS; X ray microscopy; X ray spectromicroscopy; XANES

Indexed keywords

PRINCIPAL COMPONENT ANALYSIS;

DATA ANALYSIS TOOL; HARD X-RAY IMAGING; NEXAFS; OPEN SOURCE TOOLS; SPECTRAL SIMILARITY; X RAY MICROSCOPY; X-RAY SPECTROMICROSCOPY; XANES;

CLUSTER ANALYSIS;

CERAMICS; IRON;

CERAMICS; CHEMISTRY; COMPUTER PROGRAM; DEVICES; ERYTHROCYTE; IMAGE PROCESSING; PARASITOLOGY; RADIOGRAPHY; SPECTROMETRY;

CERAMICS; ERYTHROCYTES; IMAGE PROCESSING, COMPUTER-ASSISTED; IRON; SOFTWARE; SPECTROMETRY, X-RAY EMISSION;

EID: 84928103405     PISSN: 09090495     EISSN: 16005775     Source Type: Journal    
DOI: 10.1107/S1600577514013964     Document Type: Article

References (40)

1. Ade, H., Zhang, X., Cameron, S., Costello, C., Kirz, J. & Williams, S. (1992). Science, 258, 972-975.
2. Bauer, A., Rabung, T., Claret, F., Schäfer, T., Buckau, G. & Fanghänel, T. (2005). Appl. Clay Sci. 30, 1-10.
3. Butykai, A., Orbán, A., Kocsis, V., Szaller, D., Bordács, S., Tátrai-Szekeres, E., Kiss, L. F., Bóta, A., Vértessey, B. G., Zelles, T. & Kézsmárki, I. (2013). Nat. Sci. Rep. 3, 1431.
4. Claret, F., Schäfer, T., Rabung, T., Wolf, M., Bauer, A. & Buckau, G. (2005). Appl. Geochem. 20, 1158-1168.
5. Desiraju, G. R. & Gavezzotti, A. (1989). Acta Cryst. B45, 473-482.
6. De Stasio, G., Hardcastle, S., Koranda, S. F., Tonner, B. P., Mercanti, D., Teresa Ciotti, M., Perfetti, P. & Margaritondo, G. (1993). Phys. Rev. E, 47, 2117-2121.
7. Dierksen, K., Typke, D., Hegerl, R. & Baumeister, W. (1993). Ultramicroscopy, 49, 109-120.
8. Engström, A. (1946). Acta Radiol. Suppl. 63, 1-106.
9. Fleckenstein, H. (2008). PhD thesis, Department of Physics and Astronomy, Stony Brook University, USA.
10. Groot, F. de (2005). Coord. Chem. Rev. 249, 31-63.
11. Hanssen, E., Knoechel, C., Dearnley, M., Dixon, M.W., Le Gros, M., Larabell, C. & Tilley, L. (2012). J. Struct. Biol. 177, 224-232.
12. Haraszti, T., Grunze, M. & Anderson, M. G. (2010). Chem. Cent. J. 4, 1-8.
13. Hunt, J. & Williams, D. (1991). Ultramicroscopy, 38, 47-73.
14. Jacobsen, C., Feser, M., Lerotic, M., Vogt, S., Maser, J. & Schäfer, T. (2003). J. Phys. IV (Paris), 104, 623-626.
15. Jacobsen, C., Wirick, S., Flynn, G. & Zimba, C. (2000). J. Microsc. 197, 173-184.
16. Jeanguillaume, C. & Colliex, C. (1989). Ultramicroscopy, 28, 252-257.
17. Jolliffe, I. T. (2002). Principal Component Analysis, 2nd ed. New York: Springer-Verlag.
18. King, P. L., Browning, R., Pianetta, P., Lindau, I., Keenlyside, M. & Knapp, G. (1989). J. Vac. Sci. Technol. A, 7, 3301-3304.
19. Kinyangi, J., Solomon, D., Liang, B., Lerotic, M., Wirick, S. & Lehmann, J. (2006). Soil Sci. Soc. Am. J. 70, 1708-1718.
20. Koprinarov, I. N., Hitchcock, A. P., McCrory, C. T. & Childs, R. F. (2002). J. Phys. Chem. B, 106, 5358-5364.
21. Koster, A. J., Chen, H., Sedat, J. W. & Agard, D. A. (1992). Ultramicroscopy, 46, 207-227.
22. Lee, D. D. & Seung, H. S. (1999). Nature (London), 401, 788-791.
23. Lehmann, J., Kinyangi, J. & Solomon, D. (2007). Biogeochemistry, 85, 45-57.
24. Lehmann, J., Liang, B., Solomon, D., Lerotic, M., Luizão, F., Kinyangi, J., Schäfer, T., Wirick, S. & Jacobsen, C. (2005). Global Biogeochem. Cycles, 19, 1013-1025.
25. Lehmann, J., Solomon, D., Kinyangi, J., Dathe, L., Wirick, S. & Jacobsen, C. (2008). Nat. Geosci. 1, 238-242.
26. Lerotic, M., Jacobsen, C., Gillow, J., Francis, A., Wirick, S., Vogt, S. & Maser, J. (2005). J. Electron Spectrosc. Relat. Phenom. 144-147, 1137-1143.
27. Lerotic, M., Jacobsen, C., Schäfer, T. & Vogt, S. (2004). Ultramicroscopy, 100, 35-57.
28. Liu, Y., Meirer, F., Williams, P. A., Wang, J., Andrews, J. C. & Pianetta, P. (2012). J. Synchrotron Rad. 19, 281-287.
29. MacQueen, J. (1967). Proceedings of the 5th Berkeley Symposium on Mathematical Statistics and Probability, edited by L. M. Le Cam and J. Neyman, Vol. 1, pp. 281-297. University of California Press.
30. Meirer, F., Liu, Y., Pouyet, E., Fayard, B., Cotte, M., Sanchez, C., Andrews, J. C., Mehta, A. & Sciau, P. (2013). J. Anal. At. Spectrom. 28, 1870.
31. Osanna, A. & Jacobsen, C. (2000). X-ray Microscopy: Proceedings of the Sixth International Conference, edited by W. Meyer-Ilse, T. Warwick and D. Attwood, pp. 350-357. Melville: American Institute of Physics.
32. Schaefer, T., Michel, R., Claret, F., Beetz, T., Wirick, S. & Jacobsen, C. (2009). J. Electron Spectrosc. Relat. Phenom. 170, 49-56.
33. Schäfer, T., Buckau, G., Artinger, R., Kim, J. I., Geyer, S., Wolf, M., Bleam, W. F., Wirick, S. & Jacobsen, C. (2005). Org. Geochem. 36, 567-582.
34. Solé, V. A., Papillon, E., Cotte, M., Walter, P. & Susini, J. (2007). Spectrochim. Acta B, 62, 63-68.
35. Stöhr, J. (1992). NEXAFS Spectroscopy. Berlin: Springer-Verlag. The HDF Group (2000-2010). Hierarchical data format, Version 5, http://www.hdfgroup. org/HDF5/.
36. Tzvetkov, G., Schmidt, N., Strunskus, T., Wöll, C. & Fink, R. (2007). Surf. Sci. 601, 2089-2094.
37. Walczak, M., Lawniczak-Jablonska, K., Sienkiewicz, A., Demchenko, I. N., Piskorska, E., Chatain, G. & Bohle, D. S. (2005). Nucl. Instrum. Methods Phys. Res. B, 238, 32-38.
38. Wasserman, S. R. (1997). J. Phys. IV (Paris), 7(C2), 203-205.
39. Zhang, X., Ade, H., Jacobsen, C., Kirz, J., Lindaas, S., Williams, S. & Wirick, S. (1994). Nucl. Instrum. Methods Phys. Res. A, 347, 431-435.
40. Zhang, X., Balhorn, R., Mazrimas, J. & Kirz, J. (1996). J. Struct. Biol. 116, 335-344.