Software:

Relion:

http://www2.mrc-lmb.cam.ac.uk/relion

Eman:

http://blake.bcm.edu/emanwiki/EMAN2

Gctf / Gautomatch:

http://www.mrc-lmb.cam.ac.uk/kzhang

Frealign:

http://emlab.rose2.brandeis.edu/frealign

Data collection、Post-processing and more software summary websites:

http://www.emdatabank.org/emsoftware.html

https://en.wikibooks.org/wiki/Software_Tools_For_Molecular_Microscopy