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Notes:
Version 2.0 of PESTICA is released. Major changes include
bug-fixes, algorithmic improvements, fMRI specific instructions and
pulse ox/respiratory bellows (PMU) signal handling.
Changes:
Bug fixes and changes:
- a bug causing deletion of corrected files has been fixed
- oblique datasets are now handled natively as long as you use a
version of afni_matlab that is newer than last October (2012)
- added "apply_pestica.sh" script so users can easily apply public
estimators released by this project in the future (note, this does
not work with the NYU_TRT and PaloAlto estimators released
previously, these will be re-released with the new structure soon)
- bug fixes and neat features such as MATLAB command line and use
of 3dAttribute to read slice timing, contributed by Isaac
Schwabacher
- make plots of estimator freq spectrum
- write partial command line to history file inside _pestica/ subdir
The interface has also changed, the flags for controlling PESTICA
have been simplified and altered:
-d: flag to specify input data (always required)
-b: flag to switch on batch mode (will auto-filter to a standard
range of frequencies specific to heart/respiration, seems useful
but has not been validated or compared head-to-head with manual
interactive filtering)
-m: flag to switch on canonical RETROICOR
-r reference.txt: flag and paradigm filename to be used when
correcting fMRI data with PESTICA. This protects activation from
second-pass procedure. Without this, fMRI data can experience large
reduction in activation.
-f: flag to only perform firstpass IRF procedure. May be useful
with PMU data.
-s "stage": select specific stages
-p "physioprefix": use PMU data instead of PESTICA estimators,
skips stages 1 + 2. Only Siemens scanner file PMU output supported
at present.
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