nextPYP: a scalable platform for cryo-EM/ET image analysis

nextPYP: a scalable platform for cryo-EM/ET image analysis

nextPYP is a comprehensive platform for single-particle cryo-EM/ET image analysis developed and maintained by the Bartesaghi Lab at Duke University.

Main features

  • Portable, easy-to-use, fully featured web-based GUI

  • On-the-fly data pre-processing (single-particle and tomography)

  • End-to-end pipeline for high-resolution structure determination (single-particle and tomography)

  • 2D/3D particle picking using size-based, geometry-based and neural network-based approaches

  • Scalable, small storage footprint (no need to save full size tomograms, sub-volumes, or particle stacks)

  • Multi-mode constrained refinement and constrained classification for heterogeneity analysis

  • Particle-based CTF refinement, movie frame refinement and self-tuning exposure weighting

  • Import/export metadata in .star format to interface with external programs

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Need help?

Visit nextPYP’s discussion board to post questions and follow discussions

Citing nextPYP

Liu, HF., Zhou, Y., Huang, Q., Piland, J., Jin, W., Mandel, J., Du, X., Martin, J., Bartesaghi, A., nextPYP: a comprehensive and scalable platform for characterizing protein variability in-situ using single-particle cryo-electron tomography. Nature Methods, 20:1909–1919 (2023).