https://github.com/triimaging/bidstools.jl

Tools for working with Brain Imaging Data Structure from Julia
https://github.com/triimaging/bidstools.jl

bids brain-imaging julia

Last synced: 5 months ago
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Tools for working with Brain Imaging Data Structure from Julia

• Host: GitHub
• URL: https://github.com/triimaging/bidstools.jl
• Owner: TRIImaging
• License: mit
• Created: 2019-11-29T00:29:02.000Z (about 6 years ago)
• Default Branch: master
• Last Pushed: 2020-11-16T00:44:50.000Z (about 5 years ago)
• Last Synced: 2025-06-13T02:06:08.280Z (7 months ago)
• Topics: bids, brain-imaging, julia
• Language: Julia
• Size: 458 KB
• Stars: 7
• Watchers: 2
• Forks: 7
• Open Issues: 10
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          
# BIDSTools

[![Build Status](https://travis-ci.com/TRIImaging/BIDSTools.jl.svg?branch=master)](https://travis-ci.com/TRIImaging/BIDSTools.jl)

[![CodeCoverage](https://codecov.io/gh/TRIImaging/BIDSTools.jl/branch/master/graph/badge.svg)](https://codecov.io/gh/TRIImaging/BIDSTools.jl)

[![](https://img.shields.io/badge/docs-stable-blue.svg)](https://triimaging.github.io/BIDSTools.jl/stable)

[![](https://img.shields.io/badge/docs-dev-blue.svg)](https://triimaging.github.io/BIDSTools.jl/dev)

Tools for working with Brain Imaging Data Structure (BIDS) from Julia.

For more info on BIDS, read [the documentation](https://bids-specification.readthedocs.io/en/stable/)

## Features

* Working with BIDS Directory easily 

* Flexible usage - initialize single object as you wish

* Query to get the desired files

* Other utility functions such as `total_sessions`, `parse_fname`, `parse_path`, etc.

## Quick start

```julia-repl

julia> using BIDSTools

julia> layout = Layout("/path/to/bids/root/")

Layout:

    root = /path/to/bids/root/

    total subject = 125

    total session = 137

    total files = 2945

julia> for sub in layout.subjects

           for ses in sub.sessions

               for file in ses.files

                   # do something

               end

           end

       end

julia> files = get_files(layout, path="Subtest", run="002")

1-element Array{File,1}:

File("/path/to/bids/root/sub-Subtest/ses-2/mrs/sub-Subtest_ses-2_acq-96inc_loc-pcg_spec-uns_run-002_mod-cosy_fid.tsv")

```