Hello. I am trying to write a script to analyze particles after 2D classification. Does the ‘alignments2D/shift’ field represent the number of pixels, with the pixel size being the pixel size of the extracted particles? I really appreciate your help!
Best,
Chen
Yeah, that’s right. You can follow the conversion code in pyem.metadata.cryosparc2 if you want to see.
Thank you so much, Daniel! Always so helpful 
Just a minor clarification – the alignments{2D,3D}/shift gives the shift in pixels where the pixel size is given by the alignments{2D,3D}/psize_A field. Multiplying them will give the shift in Angstroms
Michael