atnmake - tpcclib 0.7.5 © 2020 by Turku PET Centre

Computing PET attenuation correction data from blank and transmission
sinograms (1) in ECAT 6.3 file format, to be applied to ECAT 931 and
GE Advance 2D sinograms.
Normalization file is required to reduce the noise in attenuation data,
and emission sinogram still needs to be normalized.
Transmission image can be reconstructed and saved optionally.
 
Usage: atnmake [Options] blankscan trscan normfile atnfile [trimage]
 
Options:
 -decay=<Y|n>
     Decay correction for the time difference between blank and
     transmission scans is done (y, default), or not done (n).
 -limit=<y|N>
     Attenuation factors are set to values between 1.0 and 100.0 (y),
     or not limited (n, default).
 -zoom=<value>
     Set zoom factor for transmission image; by default 1.0 (no zoom).
 -dim=<value>
     Set transmission image x and y dimensions; by default the ray number.
 -rot[ation]=<value>
     Set transmission image rotation in degrees, -180 - 180; by default 0.
 -x=<value>
     Set transmission image shift in x direction (in cm); by default 0.
 -y=<value>
     Set transmission image shift in y direction (in cm); by default 0.
 -beta=<value>
     Set beta value, usually 0.1 - 0.9; by default 0.9; affects also
     attenuation factors.
 -mask=<3|5>
     Set mask dimension for median filter, either 3 (3x3) or 5 (5x5 without
     corner pixels); by default 3. Affects also attenuation factors.
 -iter=<value>
     Set maximum number of iterations for transmission image reconstruction;
     by default 45. For attenuation 120 iterations are always used.
 -skip=<value>
     Set the number of iterations without prior in transmission image
     reconstruction; by default 1.
 -os=<1|2|4|8|16>
     Set the number of OS sets (acceleration) in transmission image
     reconstruction; by default 1.
 -h, --help
     Display usage information on standard output and exit.
 -v, --version
     Display version and compile information on standard output and exit.
 -d[n], --debug[=n], --verbose[=n]
     Set the level (n) of debugging messages and listings.
 -q, --quiet
     Suppress displaying normal results on standard output.
 -s, --silent
     Suppress displaying anything except errors.
 
Example:
  atnmake 28oct97bl1.scn s02892tr1.scn s02892sta.nrm s02892tr1.atn s02892tr1.img
 
References:
1. Bettinardi V, Alenius S, Numminen P, Teras M, Gilardi MC, Fazio F,
   Ruotsalainen U. Implementation and evaluation of an ordered subsets
   reconstruction algorithm for transmission PET studies using median root
   prior and inter-update median filtering.
   Eur J Nucl Med. 2003; 30(2):222-231.
 
See also: ecatfbp, ecatmrp, ecatnorm, lmhdr, egetstrt, edecay
 
Keywords: ECAT, sinogram, reconstruction, attenuation