BIDS for behavioral studies – Visual Neuroscience Lab

Resources

Behavioral experiments (with no neural recordings) - Brain Imaging Data Structure v1.9.0

Software

How to implement

You may use the template in the BIDS starter kit (bids-starter-kit/general). Simply copy the corresponding mat file and modify the variables for your project.

After preprocessing

create_events_tsv_json_full.m

Before finalizing everything

createBIDS_participants_tsv.m

createBIDS_dataset_description_json.m

Pipeline for transriv project as an example

Add ‘transriv-bids’ to matlab path
Go to the root_dir or use the full path of root_dir as input to the functions
Preprocess data from a subject with createBIDS_beh_after_preprocessing.m (it needs getBIDSdirectory.m on the MATLAB path):

createBIDS_beh_after_preprocessing(root_dir, 'transriv', 'S001', 'Rivalry', 'GG')

Create dataset files by running transriv_finalizeBIDS.m (when data collection is finished)

The folder structure based on BIDS:

root_dir
  └─ transriv
        ├─ participants.xlsx
        ├─ participants.tsv
        ├─ participants.json
        ├─ sourcedata
        │     └─ sub-S001
        │         └─ ses-Rivalry
        │               └─ beh
        │                   └─ sub-S001_ses-Rivalry_run-GG_beh.mat
        └─ rawdata
             └─ sub-S001
                 └─ ses-Rivalry
                     └─ beh
                         ├─ sub-S001_ses-Rivalry_run-GG_beh.json
                         └─ sub-S001_ses-Rivalry_run-GG_beh.tsv

Link to our GitHub repo containing relevant scripts