Bids Python Packages

bidsschematools

Brain Imaging Data Structure (BIDS) Specification

mne-bids

MNE-BIDS is a Python package that allows you to read and write BIDS-compatible datasets with the help of MNE-Python.

pybids

Python tools for querying and manipulating BIDS datasets.

bids-validator

Validator for the Brain Imaging Data Structure

bids-validator-deno

Validator for the Brain Imaging Data Structure

fmriprep

fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

dcm2bids

Reorganising NIfTI files from dcm2niix into the Brain Imaging Data Structure

fmriprep-docker

fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

bids-manager

GUI and CLI tool for raw-to-BIDS conversion, curation, metadata editing, and validation for MRI, EEG, MEG, and physiological recordings.

qsiprep

Preprocessing of diffusion MRI

brainfc

Resting-state fMRI functional connectivity, connectome, brain network and hypergraph analysis in Python with a local GUI. 静息态 fMRI · 功能连接矩阵 · 脑网络 · 超图分析

bids2table

Index BIDS datasets fast, locally or in the cloud

bidscoin

BIDScoin converts your source-level neuroimaging data to BIDS

pypet2bids

PET2BIDS helps you convert your PET data into BIDS! raw PET scanner files (e.g. ecat, dicom) and additional side files like .e.g excel sheets -- paper @JOSS https://doi.org/10.21105/joss.06067

scitex-dataset

Multi-domain scientific dataset fetcher (neuroscience, biology, medical)

bidsgate

Recovery gate for neuroimaging pipelines: inject known lesions or atrophy into real BIDS data, run any BIDS app, score what it recovered

snakebids

Snakemake + BIDS

pydra-bids

Pydra tasks for BIDS I/O

remodnav

Robust Eye Movement Detection for Natural Viewing

qsiprep-container

Preprocessing of diffusion MRI

mne-bids-pipeline

Automatically process entire electrophysiological datasets using MNE-Python.

phys2bids

Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!

rshrf

Resting state HRF estimation from BOLD-fMRI signal

multiecho

Combine multiple-echoes from a multi-echo BOLD fMRI acquisition.