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Update FAQ; interpret figures authored by Lars Kasper's avatar Lars Kasper
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FAQ.md
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...@@ -107,11 +107,12 @@ No, the basic functionality of PhysIO, i.e. creating nuisance regressors for you ...@@ -107,11 +107,12 @@ No, the basic functionality of PhysIO, i.e. creating nuisance regressors for you
Currently, PhysIO natively supports the following physiological logfile types: Currently, PhysIO natively supports the following physiological logfile types:
* General Electric - General Electric
* Philips SCANPHYSLOG files (all versions from release 2.6 to 5.3) - Philips SCANPHYSLOG files (all versions from release 2.6 to 5.3)
* Siemens VB (files `.ecg`, `.resp`, `.puls` - Siemens VB (files `.ecg`, `.resp`, `.puls`
* Siemens VD (files (`*_ECG.log`, `*_RESP.log`, `*_PULS.log`) - Siemens VD/VE (files (`*_ECG.log`, `*_RESP.log`, `*_PULS.log`)
* Biopac .mat-export - including CMRR-like multiband-files
- Biopac .mat-export
- assuming the following variables (as columns): `data`, `isi`, `isi_units`, `labels`, `start_sample`, `units` - assuming the following variables (as columns): `data`, `isi`, `isi_units`, `labels`, `start_sample`, `units`
- See `tapas_physio_read_physlogfiles_biopac_mat.m` for details - See `tapas_physio_read_physlogfiles_biopac_mat.m` for details
...@@ -131,7 +132,11 @@ Yes you can, using the toolbox function `tapas_physio_review`. This function tak ...@@ -131,7 +132,11 @@ Yes you can, using the toolbox function `tapas_physio_review`. This function tak
Have a look at our publication: _The PhysIO Toolbox for Modeling Physiological Noise in fMRI Data_ (http://dx.doi.org/10.1016/j.jneumeth.2016.10.019) Have a look at our publication: _The PhysIO Toolbox for Modeling Physiological Noise in fMRI Data_ (http://dx.doi.org/10.1016/j.jneumeth.2016.10.019)
The figures there give a good overview of the toolbox output figures. The figures there give a good overview of the toolbox output figures, in particular:
- Fig. S1 (supplementary): Philips Scan Timing Sync from `gradient_log` (explanation of `thresh.zero`, `thresh.sli`, `thresh.vol`, `thresh.vol_spacing`
- Fig. 3: Diagnostic Raw Time Series (cardiac cycle length curve, respiration histogram)
- Fig. 8C: Single Subject F-contrast results (cardiac regressors)
- Fig. 9: Group results/typical activation sites for F-contrasts of RETROICOR regressors (cardiac/resp/interaction)
9. I want to access subject's physiological measures, e.g. heart rate or respiratory volume (per time), before they enter the regressors. Where can I do that? 9. I want to access subject's physiological measures, e.g. heart rate or respiratory volume (per time), before they enter the regressors. Where can I do that?
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