CryoSPARC Guide
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Job: Gctf (Wrapper)

How to use the wrapper for Gctf available in CryoSPARC.

Description

Estimate CTF parameters of micrographs using Gctf 1.06. CryoSPARC provides a wrapper to Gctf: Jack (Kai) Zhang. Zhang, K. (2016). Gctf : Real-time CTF determination and correction. Journal of Structural Biology, 193(1), 1-12. https://doi.org/10.1016/j.jsb.2015.11.003

Input

  • Aligned/motion-corrected micrographs

Common Parameters

  • Abs path to CUDA version: Gctf requires CUDA ≤ 8, while CryoSPARC uses CUDA ≥ 10. For the wrapper to run, you must specify the path to the alternate CUDA libraries, i.e. /usr/local/cuda-8.0/lib64.
  • Only process this many micrographs: Set a value if you wish to estimate CTF for only a subset of all micrographs, e.g., if you want to build a template for automatic particle picking.

Output

  • Micrographs with CTF information

Common Next Steps

  • Particle picking