Journal of Structural Biology, Vol.204, No.2, 215-227, 2018
APPLE picker: Automatic particle picking, a low-effort cryo-EM framework
Particle picking is a crucial first step in the computational pipeline of single-particle cryo-electron microscopy (cryo-EM). Selecting particles from the micrographs is difficult especially for small particles with low contrast. As high-resolution reconstruction typically requires hundreds of thousands of particles, manually picking that many particles is often too time-consuming. While template-based particle picking is currently a popular approach, it may suffer from introducing manual bias into the selection process. In addition, this approach is still somewhat time-consuming. This paper presents the APPLE (Automatic Particle Picking with Low user Effort) picker, a simple and novel approach for fast, accurate, and template-free particle picking. This approach is evaluated on publicly available datasets containing micrographs of beta-galactosidase, T20S proteasome, 70S ribosome and keyhole limpet hemocyanin projections.
Keywords:Cryo-electron microscopy;Single-particle reconstruction;Particle picking;Template-free;Cross-correlation;Micrographs;Support vector machines