This program calculates the volume/mass of a 3D map
volume <input file> <A/pix> [thr=<thresh>] [calc=<mass>] [set=<mass>] [plot]
| <input file> | 3D map to work with | ||
| <A/pix> | Angstroms/voxel in the map | ||
| [thr=<thresh>] | Calculate the volume/mass at a given threshold | ||
| [calc=<mass>] | Determine the threshold for a given mass | ||
| [set=<mass>] | Rescale the map densities so a threshold of 1 gives the specified mass | ||
| [plot] | Output a x/y file containing a plot of threshold vs mass |
Typical usage: volume threed.1a.mrc 4.667 set=2500
This routine calculates volumes enclosed by isosurfaces. The algorithm used is approximate. It doesn't calculate subvoxel volumes. It is fairly accurate as long as a substantial fraction of the voxels are 'inside' the volume.
For convenience, mass is specified rather than volume. Volume/mass conversions assume a density of 1.35 g/ml (0.81 Da/A^3^).
Please note that an earlier version of the docs cited 1.35 Da/A^3^. This was an error in the documentation only. The program was using the correct value.
EMAN Manual page, generated Mon Jan 8 17:35:59 2007