Home » Software

Software

Our research involves the development of computer programs that are used in all stages of cryo-EM image processing and 3-D reconstruction—from movie alignment to particle polishing and reconstruction refinements. The following programs are distributed for free academic use.

CryoVR

virtual reality-augmented hands-on cryo-EM training

MBIR

A cryo-ET 3D reconstruction method that effectively minimizes missing wedge artifacts and restores missing information. Publication|Software

jspr

software for single particle cryo-EM image processing and 3-D reconstruction. It is built on top of EMAN and EMAN2Publication|Software

s2stigmator

real-time detection and single-pass minimization of TEM objective lens astigmatism. Publication|Software

s2stigmator

Elliptic distortion estimation and correction

determine the distortion parameters directly from particle images as part of 2-D alignment without the need of pre-calibration of the microscope. Publication|Available in jspr

Improved 3-D reconstructions of T4 phage after correction of elliptic distortion

Web CTF

Web CTF: Java applet-based simulation of the contrast transfer function and envelope functions. Publication


A newer version of this tool, developed by Daoyi Li in our lab, is also now available here:

Older Software