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Software To-Do List (password protected) Production Code of the EM System (purdueEM_v2.20.tar.gz - Feb. 6, 2006) |
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Documentation for Programs Currently in Use |
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Program |
Description |
Last Update |
| CUTPIFMAP (html) |
Cuts a 3D MAP based on input of a radius, row, column or section numbers | 11-13-03 |
| EM3DR | Produces a 3D MAP from a set of particle images | 08-24-04 |
| EMCORORG | Uses cross-correlation procedures to determine the location of the origin of particles which appear circular in projection | 11-14-03 |
| EMICOFV | This is a "brute force"program that determines orientations of icosahedral particles. This is the original common lines program at Purdue University that was developed from the MRC FINDVIEW program. | 11-14-03 |
| EMICOGRAD | Refines the orientation of up to 200 icosahedral particles against each other. EMICOGRAD is usually used following EMICOFV and EMICOORG (origin determination program). | 09-15-94 |
| EMMAP3DT | Calculates 3D structure factors from a 3D MAP | 11-14-03 |
| EMMAPZOOM | Magnifies or demagnifies a 3D MAP or a portion of a 3D MAP | 11-14-03 |
| EMPFTPRJ | Calculate a database of projection and polar Fourier transform data | 11-14-03 |
| EMPRJ | Produce a series of projection images from a 3D MAP | 11-14-03 |
| EMRESOL(html) | Calculate the resolution of the EM reconstruction. The function is similar to the EMSF program | 11-13-03 |
| EMROTAVG | Form aligned average of rotationally symmetric images | 11-14-03 |
| EMROTFLT | Rotational filtering and power spectrum | 11-14-03 |
| EMSF | Multipurpose structure factor manipulation program | 11-14-03 |
| EMSF3DBT | Inverse 3D FFT of 3D structure factor data; produce 3D MAP file | 11-14-03 |
| EMSFREF | All purpose 2D crystal structure factor data manipulations | 7-31-86 |
| FFT(html) | Reads 3D Maps and 2D images in the Pif format and calculates FFTs | 11-13-03 |
| OOR | Determines orientations and origin values for particle images based on a comparison with model data. OOR performs the refinement over a limited search window. | 08-18-04 |
| PFTSEARCH | Determines orientations and origin values for particle images based on a comparison with model data. PFTSEARCH performs a global search over the entire asymmetric unit. | 08-18-04 |
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From High to Low From High to Low contains information on how you can compute low-resolution density from an atomic model. ROBEM README(txt file) How do I get ROBEM to run? ONED ONED is useful for illustrating in one-dimension the principles of diffraction theory Zeiss Procedure for using the Zeiss scanner on electron microscopy data. |
System Information |
Program |
Description |
Last Update |
| EMICO_SYS | Contains lists of programs and available documentation, common variables and parameters used in emico programs, and a reference list | 1-31-97 |
| EMPROGS | Contains a listing and brief description of current and older EM programs, descriptions of file structures, descriptions and declarations of common variables, and other general program information | 12-22-97 |
| EMSYSTEM | Provides basic information concerning the use and setup of the set of electron micrograph image analysis programs | 9-8-89 |
| PIF | Contains information regarding the Portable Image Format (PIF) for electron microscopy data | 10-29-98 |