Cryo-EM programs developed by Chuan Xiao (River)
In order to do my thesis research of the interaction between picornavirus and their receptors, I wrote many programs for cryo-EM reconstructions. All those programs are also widely used by researchers at Purdue. The purpose of this page is to list the programs and their helps. People can also refer to this page when they used these programs.
| Program | Description | Last Update |
|---|---|---|
| Parallelized EMPFT and EM3DR | Cryo-EM reconstruction core programs | 05-02-2003 |
| JOB and CYCLE | Scripts that control the reconstruction | 12-31-2001 |
| AUTOSELECT | Automatic selection of particles by sigma value | 11-06-2001 |
| AUTOSEPERATE | Automatic seperation of particles for resolution calculation | 12-08-2001 |
| MAPFFT and IMGFFT | FFT synthesis and and analyze programs for PIF map and images | 02-05-2003 |
| EMRESOL | Calculate the Fourier Shell Corelation to estimate the resolution | 05-02-2002 |
| PIF2ASC | Coversion program between PIF (image or map) and SPIDER,X-Plor,EM ASCII | 08-28-2002 |
| CTFEST | CTF defocus value automatic estimation program | 12-03-2002 |
| CUTPIFMAP | Soft cut the density of the protein shell of virus from a PIFMAP | 11-13-2003 |
| EMFOM | Use FOM as a filtration for map improvement | 09-10-2001 |
| REALALIGN | Real space alignment of focal pair images | 01-06-2003 |
| ROTBCRD | Rotate box coordinates of focal pair images | 01-31-2003 |
| REBOX | Generate re-centered coordinates file from initial PFT search | 01-31-2003 |
| FP_BRIEF | Determine the initial matrix of focal pair | 01-31-2003 |
| RIVEM | Radial Interpretation of Viral Electron density Maps | 05-26-2006 |