We develop computational methods and software for Scientific research, including:

  • X-ray scattering
  • CryoEM image processing
  • Model reconstruction and refinement
  • Single particle tracking
  • Molecular dynamics simulations (mostly for data analysis)

Available programs:

  • SASTBX : open source program, initially for small angle x-ray scattering data analysis (started with Dr. P. Zwart at Berkeley National Lab)
  • SPaT : Statistics for single particle tracking, Matlab scripts to get statistics properties from tracks
  • OSobj : Object reconstruction from oversampling data using “molecular replacement” type algorithm
  • coreshell diffraction data analysis: Data analysis scripts for coreshell diffraction patterns.
  • Step-wise Orientation Determination: Step-wise Euler angles reconstruction for Cryo-EM image processing
  • spipy: Single particle imaging Python library
  • Classification of PR772: Classification algorithms and results of PR772 dataset

Richard Feynman

“everything that is living can be understood in terms of the jiggling and wiggling of atoms”.

and now, we want to watch atoms jiggling and wiggling.

X-rays, electrons, fluorescence light, the advances of photon sciences, together with computational modeling, are making this happen.