FAQ.md

@@ -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