The book by Joachim Frank and the review paper by Marin van Heel et al provide excellent introductory material to the exciting research area of cryo-EM, and include description of many of the algorithms that are implemented in the popular software packages SPIDER and IMAGIC:

  1. Frank, Joachim (2006). Three-Dimensional Electron Microscopy of Macromolecular Assemblies. New York: Oxford University Press. ISBN 0-19-518218-9.
  2. van Heel M, Gowen B, Matadeen R, Orlova EV, Finn R, Pape T, Cohen D, Stark H, Schmidt R, Schatz M, Patwardhan A (2000). "Single-particle electron cryo-microscopy: towards atomic resolution", Q Rev Biophys. 33 (4): 307–369.

This short list of references is far from being inclusive: there is an enormous number of research papers that deal with cryo-EM and SPR.

The 3D EM Methods webpage maintains an extensive list of methodological papers, conveniently sorted by topics, .