| ... | ... | @@ -102,17 +102,24 @@ No, the basic functionality of PhysIO, i.e. creating nuisance regressors for you |
|
|
|
|
|
|
|
Currently, PhysIO natively supports the following physiological logfile types:
|
|
|
|
|
|
|
|
- Brain Imaging Data Structure (BIDS)
|
|
|
|
- [Standard for peripheral recordings]
|
|
|
|
(https://bids-specification.readthedocs.io/en/latest/04-modality-specific-files/04-physiological-and-other-continous-recordings.html)
|
|
|
|
- both raw physiological traces and pre-computed pulse events are
|
|
|
|
supported
|
|
|
|
- BioPac formats
|
|
|
|
- Biopac `.mat`-export
|
|
|
|
- assuming the following variables (as columns): `data`, `isi`, `isi_units`, `labels`, `start_sample`, `units`
|
|
|
|
- See `tapas_physio_read_physlogfiles_biopac_mat.m` for details
|
|
|
|
- Biopac `.txt`-export
|
|
|
|
- assuming the following 4 columns, with one sample per row: respiratory, skin conductance (GSR), cardiac (PPG), and trigger signal (on/off)
|
|
|
|
- General Electric
|
|
|
|
- Philips SCANPHYSLOG files (`SCANPHYSLOG<DateTime>.log`; all versions from release 2.6 to 5.3)
|
|
|
|
- Siemens VB (files `.ecg`, `.resp`, `.puls`)
|
|
|
|
- Siemens VD/VE (files `*_ECG.log`, `*_RESP.log`, `*_PULS.log`)
|
|
|
|
- including CMRR-derived multiband-files
|
|
|
|
- Siemens Human Connectome Project log files (preprocessed 3 column files `*_Physio_log.txt`)
|
|
|
|
- Biopac `.mat`-export
|
|
|
|
- assuming the following variables (as columns): `data`, `isi`, `isi_units`, `labels`, `start_sample`, `units`
|
|
|
|
- See `tapas_physio_read_physlogfiles_biopac_mat.m` for details
|
|
|
|
- Biopac `.txt`-export
|
|
|
|
- assuming the following 4 columns, with one sample per row: respiratory, skin conductance (GSR), cardiac (PPG), and trigger signal (on/off)
|
|
|
|
- Siemens formats
|
|
|
|
- Siemens VB (files `.ecg`, `.resp`, `.puls`)
|
|
|
|
- Siemens VD/VE (files `*_ECG.log`, `*_RESP.log`, `*_PULS.log`)
|
|
|
|
- including CMRR-derived multiband-files
|
|
|
|
- Siemens Human Connectome Project log files (preprocessed 3 column files `*_Physio_log.txt`)
|
|
|
|
|
|
|
|
See [Read-In of Logfiles](MANUAL_PART_READIN) for a detailed description of the expected file formats.
|
|
|
|
|
| ... | ... | @@ -204,7 +211,8 @@ Have a look at the following figure: |
|
|
|
|
|
|
|
This figure can be found as [figure S1](https://www.sciencedirect.com/science/article/pii/S016502701630259X#sec0125) in the supplementary material of our [paper](https://doi.org/10.1016/j.jneumeth.2016.10.019).
|
|
|
|
|
|
|
|
The following heuristics might help with the `sync` settings:
|
|
|
|
The following heuristics might help with the threshold settings in the `sync`
|
|
|
|
structure:
|
|
|
|
|
|
|
|
1. Note that these thresholds have to be set correctly only once for each
|
|
|
|
functional sequence, i.e., usually once per study. Even small changes to scan
|
| ... | ... | |
