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pywindow: Automated Structural Analysis of Molecular Pores

submitted on 23.07.2018, 10:33 and posted on 23.07.2018, 13:50 by Marcin Miklitz, Kim Jelfs

Structural analysis of molecular pores can yield important information on their behaviour in solution and in the bulk. We developed pywindow, a python package that allows for the automated analysis of structural features of porous molecular materials, such as molecular cages. Our analysis includes the cavity diameter, number of windows, window diameters and average molecular diameter. Molecular dynamics trajectories of can also be analysed to explore the influence of flexibility. We present the methodology, validation and application of pywindow for the analysis of molecular pores, metal-organic polyhedra and some instances of framework materials. pywindow is freely available from


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Imperial College London



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Declaration of Conflict of Interest

No conflict of interest


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in Journal of Chemical Information and Modeling

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