NAME

siemphysdat - chop Siemens Physiologic Monitoring Unit (PMU) physio files to MR timing for AFNI's retroTS

SYNOPSIS

 siemphysdat [options] phsyiofile1 physiofile2 MRdir/

Options:

  -d 0,                                 # number of MR volumes to discard 
                                        #before start

  -s [alt+z],alt-z,seq+z,               # slice order
     seq-z,filename 

  -o prefix                             # where to save files,
                                        # trailing slash are important

  -r [matlab]|McRetroTs|                # retoTS method
     show    | none 

  -j [none], bids_file.json             # use bids json file as input 
                                        # INSTEAD of MRdir/

  -n [none], #                          # specify number of trs. neccessary if using -j

  -t [none],MR,Phys,all                 # trust times&samplerate
                                        # dont compare to index count

-r none is useful if you only want the *dat files

-t MR is useful for testing against data/

-t Phys is useful for forcing a sampling rate

OUTPUT

*dat

chopped volrage meassurements with triggers removed,

*slibase.1D

RVT from AFNI's RetroTS ready for afni_proc.py or 3dretroicor

DESCRIPTION

siemphysdat will chop two physio files given timing of DICOMS in MRdir and save in a format RetroTS.m likes.

SEE ALSO

App::AFNI::SiemensPhysio