Particles off-centered when exporting to relion

  • Imported micrographs and did template-based picking and 2D classification in cryosparc.
  • Exported particles at 3D refine step (also tried at 2D step). using using script below.
  • Re-extracted particles in relion from original micrographs.
  • All particles shifted to upper-left corner of the box, as seen by either displaying the particles or doing 2D classification. particles_selected.cs fullpath/of/outputfile/location/ --passthrough passthrough_particles_selected.cs

watch here