Input files and structures

Accepted file extensions

Text files (.txt)
Tab-separated files (.tsv)
Generic data files (.dat)
Numpy array (.npy)
MATLAB (.mat) files (v4 and v6-7.2 using scipy.io.loadmat, v7.3 using mat73 package)
HDF5 (.h5) files
zip folders containing all above file extensions

Please note the following rules and recommendations:

The most important file to have for conversions is Structural Connectome which is must be named weights.
Recommended files:
- centres (or nodes and labels separately),
- distances (or tract_lengths which is the other name for distances, thus this file will be renamed to distances both in the input and output folders)
- Python, MATLAB or R code that can reproduce the results
- empirical and simulated time series and time stamps.
average_orientation or orientation will be renamed to normals according to BEP034 both in the input and output folders.

Here is the list of files that are supported by the app categorized by their respective folders.

Coordinates (`coord` folder)
File name	Description	Dimensions	Notes
centres	consists of nodes (nx1 vector) and labels (nx3 matrix) in that order.	nx4	See description of `nodes` and `labels` below
nodes	These are the region labels (e.g., lh_bankssts, lh_superiorfrontal).	nx1	recommended
delays	These are the 3d coordinate centres	nx3	recommended
times	These are the time steps of the simulated time series.	nx1	recommended
bold_times	These are the time steps of the simulated BOLD time series.	nx1	recommended
areas	This is the estimated vector each region’s area in mm^2.	nx1	optional
cortical	This is the vector that distinguishes cortical (1) from subcortical (0) regions.	nx1	optional
average orientations, normals	normals.	nx3	optional. If the file name is `average_orientation`, it will be named `normals` in input and output folders.
hemisphere	The vector that distinguishes right (1) from left (0) hemisphere.	nx1	optional.
faces	These are the faces of cortex surface triangulation.		optional.
vertices	These are the vertices of cortex surface triangulation.		optional.
map	This is the nxm matrix where the coordinates along rows are mapped to the coordinates along columns.	nxm	optional.