Name

sxrecons3d_f - 3D reconstruction and calculation of FSC curve

Usage

Usage in command lines:

[ mpirun -np 4 ] sxrecons3d_f.py prj_stack volume fsc_curve <mask> --CTF --snr=signal_noise_ratio --list=file --group=ID --sym=symmetry -verbose=(0|1) --MPI

Usage in python programming:

recons3d_f(prj_stack, volume, fsc_file, mask=None, CTF=True, snr=1.0, sym="c1", listfile = "", group = -1, verbose=1, MPI=False)

Input

prj_stack
projection stack file, each image should have the following attributes set in the header: (1) xform.projection - transform object defining orientation of a given projection image, (2) ctf - a ctf object if CTF flag is used, (3) ctf_applied - a flag indicating whether given image was pre-multiplied by the ctf (0 - no; 1 - yes).
maskfile
file containing a 3D mask. Odd and even volumes will have average outisde of this mask subtracted and will be multiplied by this mask for the calculation of the FSC statistics
npad
padding size, default is 2

Output

volume
reconstructed volume file
fsc_curve
text file contains fsc data

Options

CTF
the data is CTF or not
snr
Singal-to-Noise Ratio of input data
sym
symmetry of input data (default is "c1")
verbose
verbose level (0:no verbose, 1: verbose) default is 0

Description

Author / Maintainer

Wei Zhang

Keywords

category 1
APPLICATIONS
category 2
FOURIER

Files

sxrecons3d_f.py

See also

Maturity

stable
works for most people, has been tested; test cases/examples available.

Bugs

None. It is perfect.

sxrecons3d_f (last edited 2015-05-28 20:06:19 by penczek)