PITRE: Software for phase-sensitive X-ray image processing and tomography reconstruction

Journal of Synchrotron Radiation

Volumn 19, Issue 5, 2012, Pages 836-845

  Chen, Rong Chang ^a   Dreossi, Diego ^b   Mancini, Lucia ^b   Menk, Ralf ^b   Rigon, Luigi ^a   Xiao, Ti Qiao ^c   Longo, Renata ^a,d  

^a SEZIONE DI TRIESTE   (Italy)

^b SINCROTRONE TRIESTE   (Italy)

^c SHANGHAI INSTITUTE OF APPLIED PHYSICS   (China)

^d UNIVERSITY OF TRIESTE   (Italy)

Author keywords

image processing; phase image; tomography reconstruction

Indexed keywords

COMPUTED TOMOGRAPHY; CONVENTIONAL ABSORPTION; CT DATA; DIFFRACTION-ENHANCED IMAGING; INTERACTIVE DATA LANGUAGES; MANUAL INTERVENTION; MICROSOFT WINDOWS SYSTEMS; PHASE IMAGE; PHASE RETRIEVAL; PHASE-CONTRAST IMAGING/TOMOGRAPHY; PHASE-SENSITIVE; RESEARCH FIELDS; SCATTERING INFORMATION; TOMOGRAPHY RECONSTRUCTION; VIRTUAL MACHINES; X-RAY IMAGE PROCESSING;

BATCH DATA PROCESSING; DATA HANDLING; GRAPHICAL USER INTERFACES; IMAGE PROCESSING; IMAGE RECONSTRUCTION; MANAGEMENT; MANAGERS; X RAY ANALYSIS;

COMPUTERIZED TOMOGRAPHY;

ARTICLE; COMPUTER ASSISTED DIAGNOSIS; COMPUTER ASSISTED TOMOGRAPHY; COMPUTER PROGRAM; IMAGE PROCESSING; METHODOLOGY;

IMAGE PROCESSING, COMPUTER-ASSISTED; RADIOGRAPHIC IMAGE INTERPRETATION, COMPUTER-ASSISTED; SOFTWARE; TOMOGRAPHY, X-RAY COMPUTED;

EID: 84865424580     PISSN: 09090495     EISSN: 16005775     Source Type: Journal    
DOI: 10.1107/S0909049512029731     Document Type: Article

References (63)

1. Abrami, A. et al. (2004). Nucl. Instrum. Methods Phys. Res. A, 548, 221-227.
2. Arhatari, B. D., De Carlo, F. & Peele, A. G. (2007). Rev. Sci. Instrum. 78,053701.
3. Bonse, U. (2008). Proc. SPIE, 7078, 707802.
4. Born, M. &Wolf, E. (1999). Principles of Optics, 7th ed. Cambridge UniversityPress.
5. Bronnikov, A. V. (2002). J. Opt. Soc. Am. A, 19, 472-480.
6. Brun, F., Mancini, L., Kasae, P., Favretto, S., Dreossi, D. & Tromba, G. (2010).Nucl. Instrum. Methods Phys. Res. A, 615, 326-332.
7. Chapman, D., Thomlinson, W., Johnston, R. E., Washburn, D., Pisano, E.,Gmur, N., Zhong, Z., Menk, R., Arfelli, F. & Sayers, D. (1997). Phys. Med.Biol. 42, 2015-2025.
8. Chen, R. C., Longo, R., Rigon, L., Zanconati, F., De Pellegrin, A., Arfelli, F.,Dreossi, D., Menk, R.-H., Vallazza, E., Xiao, T. Q. & Castelli, E. (2010).Phys. Med. Biol. 55, 4993-5005.
9. Chen, R. C., Rigon, L. & Longo, R. (2011a). J. Phys. D, 44, 495401.
10. Chen, R. C., Xie, H. L., Rigon, L., Longo, R., Castelli, E. & Xiao, T. Q. (2011b).Opt. Lett. 36, 1719-1721.
11. Chou, C. Y., Anastasio, M. A., Brankov, J. G., Wernick, M. N., Brey, E. M.,Connor, D. M. & Zhong, Z. (2007). Phys. Med. Biol. 52, 1923-1945.
12. Cloetens, P., Barrett, R., Baruchel, J., Guigay, J. P. & Schlenker, M. (1996). J.Phys. D, 29, 133-146.
13. Cloetens, P., Ludwig, W., Baruchel, J., Van Dyck, D., Van Landuyt, J., Guigay,J. P. & Schlenker, M. (1999). Appl. Phys. Lett. 75, 2912-2914.
14. Cloetens, P., Pateyron-Salomé, M., Buffière, J. Y., Peix, G., Baruchel, J., Peyrin,F. & Schlenker, M. (1997). J. Appl. Phys. 81, 5878-5886.
15. CXRO (2012). CXRO, http://henke.lbl.gov/optical-constants/getdb2.html.
16. Deng, B., Yang, Q., Xie, H. L., Du, G. H. & Xiao, T. Q. (2011). Chin. Phys. C,35, 402-404.
17. Dilmanian, F. A., Zhong, Z., Ren, B., Wu, X. Y., Chapman, L. D., Orion, I. &Thomlinson, W. C. (2000). Phys. Med. Biol. 45, 933-946.
18. Dowd, B. A., Campbell, G. H., Marr, R. B., Nagarkar, V., Tipnis, S., Axe, L. &Siddons, D. P. (1999). Proc. SPIE, 3772, 224-326.
19. Fife, J. L., Rappaz, M., Pistone, M., Celcer, T., Mikuljan, G. & Stampanoni, M.(2012). J. Synchrotron Rad. 19, 352-358.
20. Fitzgerald, R. (2000). Phys. Today, 53, 23-26.
21. GraphicsMagick (2012). GraphicsMagick, http://www.graphicsmagick.org/ index.html.
22. Groso, A., Abela, R. & Stampanoni, M. (2006). Opt. Express, 14, 8103-8110.
23. GSECARS (2012). GSECARS, http://cars9.uchicago.edu/software/idl/ tomography.html.
24. Guigay, J. P. (1977). Optik, 49, 121-125.
25. Gureyev, T. E., Davis, T. J., Pogany, A., Mayo, S. C. & Wilkins, S. W. (2004).Appl. Opt. 43, 2418-2430.
26. Gureyev, T. E., Nesterets, Y., Ternovski, D., Thompson, D., Wilkins, S. W.,Stevenson, A. W., Sakellariou, A. & Taylor, J. A. (2011). Proc. SPIE, 8141,81410B.
27. Gureyev, T. E., Paganin, D. M., Myers, G. R., Nesterets, Y. I. & Wilkins, S. W.(2006). Appl. Phys. Lett. 89, 034102.
28. Haberthür, D., Hintermüller, C., Marone, F., Schittny, J. C. & Stampanoni, M.(2010). J. Synchrotron Rad. 17, 590-599.
29. Henke, B. L., Gullikson, E. M. & Davis, J. C. (1993). Atom. Data. Nucl. DataTables, 54, 181-342.
30. Hintermüller, C., Marone, F., Isenegger, A. & Stampanoni, M. (2010). J.Synchrotron Rad. 17, 550-559.
31. Holotomography (2012). Holotomography, http://www.esrf.eu/ UsersAndScience/Publications/Highlights/1999/Tech-Inst/holotom.html.
32. Hu, J. Z., Wu, T. D., Zeng, L., Liu, H. Q., He, Y., Du, G. H. & Lu, H. B. (2012).Phys. Med. Biol. 57, N55-N63.
33. IDL (2012). IDL, http://www.exelisvis.com/language/en-us/ productsservices/idl.aspx.
34. ImageJ (2012). ImageJ, http://rsbweb.nih.gov/ij/.
35. Kak, A. C. & Slaney, M. (2001). Principles of Computerized TomographicImaging. Philadelphia: Society of Industrial and Applied Mathematics.
36. Liu, X. X., Zhao, J., Sun, J. Q., Gu, X., Xiao, T. Q., Liu, P. & Xu, L. X. (2010).Phys. Med. Biol. 55, 2399-2409.
37. Lopez, F. C., Rigon, L., Longo, R., Arfelli, F., Bergamaschi, A., Chen, R. C.,Dreossi, D., Schmitt, B., Vallazza, E. & Castelli, E. (2011). J. Instrum. 6,C12031.
38. Lu, W., Dong, Z., Liu, Z., Fu, W., Peng, Y., Chen, S., Xiao, T., Xie, H., Du, G.,Deng, B. & Zhang, X. (2010). J. Surg. Res. 164, E193-E199.
39. Marone, F., Munch, B. & Stampanoni, M. (2010). Proc. SPIE, 7804, 780410.
40. Momose, A. (2005). Jpn. J. Appl. Phys. 44, 6355-6367.
41. Montanari, F., Mancini, L. & Dreossi, D. (2003). SYRMEP-Tomo- Projecttutorial: Internet Report, Sincrotrone Trieste, Italy (http://www.ts.infn.it/physics/experiments/syrma/SYRMEP/Tutorial-tomo-program. ppt).
42. Munch, B., Trtik, P., Marone, F. & Stampanoni, M. (2009). Opt. Express, 17,8567-8591.
43. Nugent, K. A., Gureyev, T. E., Cookson, D. F., Paganin, D. & Barnea, Z.(1996). Phys. Rev. Lett. 77, 2961-2964.
44. Paganin, D.,Mayo, S. C., Gureyev, T. E., Miller, P. R. &Wilkins, S.W. (2002). J.Microsc. 206, 33-40.
45. Pani, S., Longo, R., Dreossi, D., Montanari, F., Olivo, A., Arfelli, F.,Bergamaschi, A., Poropat, P., Rigon, L., Zanconati, F., Dalla Palma, L. &Castelli, E. (2004). Phys. Med. Biol. 49, 1739-1754.
46. PITRE (2012). PITRE, http://webint.ts.infn.it/en/research/exp/beats2/ pitre.html or https://sites.google.com/site/rongchangchen/pitre-download.
47. Rigon, L., Arfelli, F., Bergamaschi, A., Chen, R. C., Dreossi, D., Longo, R.,Menk, R. H., Schmitt, B., Vallazza, E. & Castelli, E. (2010a). Nucl. Instrum.Methods Phys. Res. A, 617, 244-245.
48. Rigon, L., Arfelli, F. & Menk, R. H. (2007a). J. Phys. D, 40, 3077-3089.
49. Rigon, L., Arfelli, F. & Menk, R. H. (2007b). Appl. Phys. Lett. 90, 114102.
50. Rigon, L., Astolfo, A., Arfelli, F. & Menk, R. H. (2008). Eur. J. Radiol. 68, S3-S7.
51. Rigon, L. et al. (2010b). E-Preserv. Sci. 7, 71-77.
52. Rigon, L., Tapete, F., Dreossi, D., Arfelli, F., Bergamaschi, A., Chen, R.-C.,Longo, R., Menk, R.-H., Schmitt, B., Vallazza, E. & Castelli, E. (2011). Nucl.Instrum. Methods Phys. Res. A, 628, 419-422.
53. Rivers, M. L., Wang, Y. & Uchida, T. (2004). Proc. SPIE, 5535, 783-791.
54. Snigirev, A., Snigireva, I., Kohn, V., Kuznetsov, S. & Schelokov, I. (1995). Rev.Sci. Instrum. 66, 5486-5492.
55. Sodini, N., Dreossi, D., Chen, R. C., Fioravanti, M., Giordano, A., Herrestal, P.,Rigon, L. & Zanini, F. (2012). J. Cult. Herit. In the press.
56. Tang, R. B., Xi, Y., Chai,W. M.,Wang, Y. T., Guan, Y. J., Yang, G. Y., Xie, H. L.& Chen, K. M. (2011). Phys. Med. Biol. 56, 3503-3512.
57. VGStudio Max (2012). VGStudio Max, http://www.volumegraphics.com/en/ products/vgstudio-max.html.
58. Weitkamp, T., Haas, D.,Wegrzynek, D. & Rack, A. (2011). J. Synchrotron Rad.18, 617-629.
59. Wilkins, S. W., Gureyev, T. E., Gao, D., Pogany, A. & Stevenson, A. W. (1996).Nature (London), 384, 335-338.
60. Wu, X. Z., Liu, H. & Yan, A. M. (2005). Opt. Lett. 30, 379-381.
61. X-TRACT (2012). X-TRACT, http://www.ts-imaging.net/Services/AppInfo/X- TRACT.aspx.
62. Yang, Q., Deng, B., Lv, W., Shen, F., Chen, R., Wang, Y., Du, G., Yan, F., Xiao,T. & Xu, H. (2012). J. Synchrotron Rad. 19, 210-215.
63. Zhang, X. Y., Zhang, D. M., Yan, X. H., Liu, C. L., Dang, R. S., Xiao, T. Q. &Zhu, P. P. (2011). Anal. Bioanal. Chem. 401, 803-808.