publication . Article . 2013

interactive visualization tools for the structural biologist

Porebski, Benjamin T.; Ho, Bosco K.; Buckle, Ashley M.;
Open Access
  • Published: 01 Aug 2013 Journal: Journal of Applied Crystallography, volume 46, pages 1,518-1,520 (issn: 0021-8898, Copyright policy)
  • Publisher: International Union of Crystallography (IUCr)
Abstract
Two software plugins are presented for the Mac OSX operating system that allow rapid and convenient visualization of Protein Data Bank files and X-ray diffraction images directly within the file browser, without the need for full-featured applications.
Subjects
ACM Computing Classification System: ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION
free text keywords: General Biochemistry, Genetics and Molecular Biology, Visualization, Software, business.industry, business, Optics, Interactive visualization, Computer graphics (images), Structural Biologist, Data management, Scrolling, Chemistry, Plug-in, computer.software_genre, computer, Protein Data Bank, computer.file_format, Computer Programs, PDB visualization, X-ray diffraction images

Adxv (2013). Adxv – A Program to Display X-ray Diffraction Images, http://www.scripps.edu/~arvai/adxv.html.

Battye, T. G. G., Kontogiannis, L., Johnson, O., Powell, H. R. & Leslie, A. G. W. (2011). Acta Cryst. D 67, 271–281.

Berman, H. M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T. N., Weissig, H., Shindyalov, I. N. & Bourne, P. E. (2000). Nucleic Acids Res. 28, 235–242.

Humphrey, W., Dalke, A. & Schulten, K. (1996). J. Mol. Graph. 14, 33–38.

Kabsch, W. (1988). J. Appl. Cryst. 21, 916–924.

McNicholas, S., Potterton, E., Wilson, K. S. & Nob le, M. E. M. (2011). Acta Cryst. D 67, 386–394.

Minor, W., Cymborowski, M., Otwinowski, Z. & Chruszcz, M. (2006). Acta Cryst. D 62, 859–866.

Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C. & Ferrin, T. E. (2004). J. Comput. Chem. 25, 1605–1612.

Schrodinger LLC (2010). PyMOL Version 1.3. http://www.pymol.org.

Winn, M. D. et al. (2011). Acta Cryst. D 67, 235–242.

Abstract
Two software plugins are presented for the Mac OSX operating system that allow rapid and convenient visualization of Protein Data Bank files and X-ray diffraction images directly within the file browser, without the need for full-featured applications.
Subjects
ACM Computing Classification System: ComputingMethodologies_IMAGEPROCESSINGANDCOMPUTERVISION
free text keywords: General Biochemistry, Genetics and Molecular Biology, Visualization, Software, business.industry, business, Optics, Interactive visualization, Computer graphics (images), Structural Biologist, Data management, Scrolling, Chemistry, Plug-in, computer.software_genre, computer, Protein Data Bank, computer.file_format, Computer Programs, PDB visualization, X-ray diffraction images

Adxv (2013). Adxv – A Program to Display X-ray Diffraction Images, http://www.scripps.edu/~arvai/adxv.html.

Battye, T. G. G., Kontogiannis, L., Johnson, O., Powell, H. R. & Leslie, A. G. W. (2011). Acta Cryst. D 67, 271–281.

Berman, H. M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T. N., Weissig, H., Shindyalov, I. N. & Bourne, P. E. (2000). Nucleic Acids Res. 28, 235–242.

Humphrey, W., Dalke, A. & Schulten, K. (1996). J. Mol. Graph. 14, 33–38.

Kabsch, W. (1988). J. Appl. Cryst. 21, 916–924.

McNicholas, S., Potterton, E., Wilson, K. S. & Nob le, M. E. M. (2011). Acta Cryst. D 67, 386–394.

Minor, W., Cymborowski, M., Otwinowski, Z. & Chruszcz, M. (2006). Acta Cryst. D 62, 859–866.

Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C. & Ferrin, T. E. (2004). J. Comput. Chem. 25, 1605–1612.

Schrodinger LLC (2010). PyMOL Version 1.3. http://www.pymol.org.

Winn, M. D. et al. (2011). Acta Cryst. D 67, 235–242.

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publication . Article . 2013

interactive visualization tools for the structural biologist

Porebski, Benjamin T.; Ho, Bosco K.; Buckle, Ashley M.;