Creating a default model#
It is possible to write a “first draft” for your model by using Pybids or bids-matlab.
See below for code snippet showing how to do it with each package.
PyBIDS - auto_model
#
PyBIDS currently represents
models as dictionaries.
To generate a default model dictionary, use bids.modeling.auto_model()
,
and then use json.dump()
to save it to a file.
from bids import BIDSLayout
from bids.modeling import auto_model
import json
# indexing the dataset
layout = BIDSLayout(path_to_dataset)
# creating the default model
model = auto_model(layout, one_vs_rest=True)
# saving to a JSON file
with open("model-default_smdl.json", "w") as outfile:
json.dump(model[0], outfile, indent=2)
BIDS-MATLAB - Model.default
#
BIDS-MATLAB provides
similar functionality through bids.Model.default()
:
% indexing the dataset
BIDS = bids.layout(path_to_dataset);
% create an empty model
bm = bids.Model();
% creating the default model for our dataset
bm = bm.default(BIDS);
% saving to a JSON file
filename = fullfile(pwd, 'model-default_smdl.json');
bm.write(filename);