I’m currently stuck in a problem when dealing with bin1 particles.
I imported .mrcs form movies with raw pix size of about 0.5 and then did whole frame motion correction and CTF estimation. After rounds of classification, I extracted bin1 particles with box size of 512 pix. But when I performed ab initio recontruction, the reconstruction box size is always 128 or 64. I don’t know why this happened.
Generally, I use Motioncor2 for motion correction, and pix for imported micrograph is about 1. So I use 256 pix for particle extraction and things went on well when ab initio is done after such processes.