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* list tools * liquify rendering
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# - name: | ||
# url: | ||
# documentation: | ||
# language: | ||
# - | ||
# description: | ||
# distribution: | ||
# - name: pypi | ||
# url: | ||
# - name: dockerhub | ||
# url: | ||
|
||
- name: babs | ||
url: https://github.com/PennLINC/babs | ||
documentation: https://pennlinc-babs.readthedocs.io/ | ||
language: | ||
- Python | ||
description: BIDS App Bootstrap (BABS) is a reproducible, generalizable, and scalable Python package for BIDS App analysis of large datasets. It uses DataLad and adopts FAIRly big framework. | ||
distribution: | ||
- name: pypi | ||
url: https://pypi.org/project/babs/ | ||
|
||
- name: BIDSHandler | ||
url: https://github.com/Macquarie-MEG-Research/BIDSHandler | ||
language: | ||
- Python | ||
description: Python module allowing complete manipulation of BIDS data | ||
|
||
- name: bids-cfood | ||
url: https://gitlab.indiscale.com/caosdb/src/crawler-cfoods/bids-cfood | ||
language: | ||
- Python | ||
description: a module to handle BIDS dataset for the caosDB data crawler | ||
|
||
- name: bids2cite | ||
url: https://github.com/Remi-Gau/bids2cite | ||
language: | ||
- Python | ||
description: package to interactively update `dataset_description.json` and generate citation files (for example `datacite.yml`) for BIDS datasets. | ||
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||
- name: bids-matlab | ||
url: https://github.com/bids-standard/bids-matlab | ||
language: | ||
- MATLAB | ||
- Octave | ||
description: MATLAB/Octave tools to interact with datasets conforming to the BIDS format | ||
|
||
- name: BIDS-pydantic | ||
url: https://github.com/gold-standard-phantoms/bids-pydantic | ||
language: | ||
- Python | ||
description: "Pulls a specified version of the BIDS schema and creates corresponding Pydantic models, which will provide BIDS data validation using Python type annotations. See also [BIDS-pydantic-models](https://pypi.org/project/BIDS-pydantic-models/)." | ||
distribution: | ||
- name: pypi | ||
url: https://pypi.org/project/BIDS-pydantic/ | ||
|
||
- name: bidser | ||
url: https://github.com/bbuchsbaum/bidser | ||
documentation: https://bbuchsbaum.github.io/bidser/ | ||
language: | ||
- R | ||
description: Working with Brain Imaging Data Structure in R | ||
|
||
- name: Brainstorm | ||
url: http://neuroimage.usc.edu/brainstorm/ | ||
language: | ||
- MATLAB | ||
description: MEG/EEG analysis package | ||
|
||
- name: clpipe | ||
url: https://github.com/cohenlabUNC/clpipe | ||
documentation: https://clpipe.readthedocs.io/en/latest/index.html | ||
language: | ||
- Python | ||
description: streamlined processing pipeline for MRI data centered around BIDS | ||
|
||
- name: cuBIDS | ||
url: https://github.com/pennlinc/cubids | ||
documentation: https://cubids.readthedocs.io/en/latest/ | ||
language: | ||
- Python | ||
description: a Python package designed to facilitate reproducible curation of neuroimaging BIDS datasets | ||
distribution: | ||
- name: pypi | ||
url: https://pypi.org/project/cubids/ | ||
|
||
- name: GUI dataset description generator | ||
url: https://github.com/tolik-g/BIDS | ||
documentation: | ||
language: | ||
- Python | ||
description: GUI form that generates `dataset_description.json` | ||
|
||
- name: Lead-DBS | ||
url: https://www.lead-dbs.org/ | ||
language: | ||
- MATLAB | ||
description: A toolbox facilitating Deep Brain Stimulation electrode reconstructions and computer simulations supports BIDS conversion and ingestion of BIDS datasets. | ||
|
||
- name: mne-bids | ||
url: https://github.com/mne-tools/mne-bids | ||
documentation: https://mne.tools/mne-bids/stable/index.html | ||
language: | ||
- Python | ||
description: collection of tools for converting magnetoencephalography (MEG) data into BIDS format, as well as some helper functions for creating the folders and metadata needed for a BIDS dataset. | ||
|
||
- name: OpenNeuro | ||
url: http://openneuro.org | ||
description: A free and open platform for validating and sharing BIDS-compliant data. | ||
|
||
- name: PRFmodel | ||
url: https://github.com/vistalab/PRFmodel | ||
documentation: https://github.com/vistalab/PRFmodel/wiki | ||
description: a set of tools to fit population receptive field models to BIDS datasets | ||
distribution: | ||
- name: dockerhub | ||
url: | ||
- https://hub.docker.com/r/garikoitz/prfsynth | ||
- https://hub.docker.com/r/garikoitz/prfanalyze-vista | ||
- https://hub.docker.com/r/garikoitz/prfanalyze-afni | ||
- https://hub.docker.com/r/garikoitz/prfanalyze-aprf | ||
- https://hub.docker.com/r/garikoitz/prfanalyze-popeye | ||
- https://hub.docker.com/r/garikoitz/prfreport | ||
|
||
- name: PyBIDS | ||
url: https://github.com/bids-standard/pybids | ||
documentation: | ||
language: | ||
- Python | ||
description: Python package to quickly parse / search the components of a BIDS dataset. It also contains functionality for running analyses on your data. | ||
distribution: | ||
- name: pypi | ||
url: https://pypi.org/project/pybids/ | ||
|
||
- name: rbids | ||
url: https://github.com/mathesong/rbids | ||
language: | ||
- R | ||
description: aims to make BIDS datasets more easily accessible for packages written in R | ||
|
||
- name: spm_2_bids | ||
url: https://github.com/cpp-lln-lab/spm_2_bids | ||
documentation: https://spm-2-bids.readthedocs.io/en/latest/ | ||
language: | ||
- MATLAB | ||
- Octave | ||
description: a tool convert SPM preprocessed output to BIDS derivatives (trying to follow [BEP12](https://bids.neuroimaging.io/bep012)) |
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<div> | ||
<ul> | ||
{% assign tools = include.tools %} | ||
{% for tool_ in tools %} | ||
{% assign name = tool_.name %} | ||
<li><b><a href="{{ tool_.url }}" target="_blank">{{ tool_.name }}</a>:</b>{{ tool_.description | markdownify }}</li> | ||
{% endfor %} | ||
</ul> | ||
</div> |
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