SPIDER-file utilities

This is a collection of small programs to read image files written by SPIDER. These programs are written in C.

• spi2pgm dumps the first slice of an SPI file to the standard portable greymap (PGM) format.

• spi_read is a MATLAB MEX function to read three-dimensional SPIDER volumes directly into Matlab.

All the source code is in this directory. You can grab it all at once as spi_file-latest.tar.gz. This includes binaries for linux x86.

Example usage of the matlab function

Read in the data into a three dimensional array called "vol": vol = spi_read('data.spi'); Do an isosurface extraction: fv = isosurface(vol) Visualize it (from the help for isosurface): p = patch(fv); isonormals(vol p) set(p, 'FaceColor', 'red', 'EdgeColor', 'none'); daspect([1 1 1]) view(3) camlight; lighting phong;