NAME

       minctecat - convert a minc format file to an Ecat7 format file

SYNOPSIS

       minctoecat [<options>] <infile.mnc> <outfile.v>

       minctoecat [-help]

DESCRIPTION

       minctoecat  will  convert a 2D image, a 3D volumes or a 4D dynamic volumes written in minc
       file format to a 2D, 3D or 4D Ecat7 file.  Whereas the Ecat7 format has been designed  for
       PET  volume  issued  by Ecat scanners (CTI/SIEMENS - Knoxville, TN, USA) it reads any minc
       volume type (static PET, dynamic PET,  aMRI,  fMRI,  labels)  natively  delivered  by  any
       tomograph  brand  and transform it to a viable Ecat7 file in term of number of dimensions,
       dimension size, dimension step, orientation, spatial  position,  voxel  values  and  voxel
       unit.   Furthermore, it tries the best as it can to fill optional Ecat7 header fields from
       the available minc variables and attributes. By  default,  it  extracts  these  additional
       information   from   common  minc  variables,  namely:  patient_variable,  study_variable,
       acquisition_variable. In the case of volumes originally delivered by an Ecat PET scanners,
       then,    other    variable    are    generally   available   within   the   minc   header:
       ecat_acquisition_variable, ecat_main and ecat_sub-header_variable.  There, for a such minc
       volume,  the  conversion  yields  a  Ecat7  volume almost identical to the original native
       volume in terms of header fields.  The user can alter this behaviour using the ignore-list
       options (see the option section).

OPTIONS

       Note  that  options  can be specified in abbreviated form (as long as they are unique) and
       can be given anywhere on the command line.

Command specific options

       -ignore_patient_variable: Ignore information from the minc patient variable (MIpatient).

       -ignore_study_variable: Ignore information from the minc study variable (MIstudy).

       -ignore_acquisition_variable:  Ignore  information  from  the  minc  acquisition  variable
       (MIacquisition).

       -ignore_ecat_accquisition_variable:  Ignore  information  from  the  minc ecat acquisition
       variable (MIecat_acquisition).

       -ignore_ecat_main_variable: Ignore information  from  the  minc  ecat-mainheader  variable
       (MIecat-main).

       -ignore_ecat_subheader_variable:  Ignore information from the minc ecat-subheader variable
       (MIecat-subheader).

       -no_decay_corr_fctr: do not regenerate the decay correction factors employed  as  part  as
       the  reconstruction  of  the original PET volume. The correction factors is a field in the
       ecat sub-headers which can be used by processing programs. By default, if the volume is  a
       PET  volume ,those factors are regenerated. This option has no interest in the case of non
       PET data.

       -label: Treats voxel as integer values instead of floating point values. In this case, the
       scale  factors  and  the  calibration  factors  are  both  set  to  unity.  This option is
       particularly useful when the input minc files is a volume of labels.

General options

       -help: Print summary of command-line options and abort

       -version: Print the program's version and abort

KNOWN BUGS

       No bug listed so far :=)

SEE ALSO

       ecattominc(1), rawtominc(1), minctoraw(1), dicomtominc(1)

AUTHOR

       Anthonin Reilhac (anthonin.reilhac@cermep.fr)

COPYRIGHTS

       Copyrights 2005 by Anthonin Reilhac

                                                                                    minctoecat(1)