Connectome Mapper 3
Connectome Mapper 3: A Flexible and Open-Source Pipeline Software for Multiscale Multimodal Human Connectome Mapping - Published in JOSS (2022)
bidsmreye
BIDS app using deepMReye to decode eye motion for fMRI time series data.
https://github.com/bids-apps/freesurfer
BIDS app wrapping recon-all from FreeSurfer
https://github.com/bids-apps/rshrf
Resting state HRF estimation from BOLD-fMRI signal
https://github.com/bids-apps/mrtrix3_connectome
Generate subject connectomes from raw BIDS data & perform inter-subject connection density normalisation, using the MRtrix3 software package.
https://github.com/bids-apps/ndmg
BIDS app for NeuroData's MRI to Graphs pipeline
https://github.com/bids-apps/hyperalignment
Hyperalignment is a functional alignment method that aligns subjects' brain data in a high-dimensional space of voxels/features.
https://github.com/bids-apps/brainsuite
BrainSuite's structural, diffusion, and functional MRI processing pipelines with QC functionalities.
https://github.com/bids-apps/oppni
runs fast optimization of preprocessing pipelines for BOLD fMRI
https://github.com/bids-apps/pymvpa
runs MVPA and RSA analysis BIDS bold derivative data
https://github.com/bids-apps/mindboggle
Improve the accuracy, precision, and consistency of automated labeling and shape analysis of human brain image data
https://github.com/bids-apps/aa
BIDS App containing an instance of the Automatic Analysis
https://github.com/bids-apps/rs_signal_extract
BIDS App for resting state signal extraction using nilearn.
https://github.com/bids-apps/tracula
implements Freesurfer's TRACULA (TRActs Constrained by UnderLying Anatomy) tool for cross-sectional as well as longitudinal (multi session) input data.
https://github.com/bids-apps/brainiak-srm
This is the BIDS-app version of the Shared Response Model (SRM) of BrainIAK
https://github.com/bids-apps/hcppipelines
A BIDS App for minimal preprocessing using the HCP Pipelines
https://github.com/bids-apps/spm
BIDS App containing an instance of the SPM software.
https://github.com/bids-apps/baracus
Predicts brain age, based on data from Freesurfer 5.3
https://github.com/bids-apps/antscorticalthickness
BIDS App for calculating cortical thickness using ANTs
https://github.com/bids-apps/snpm
BIDS App containing an instance of the SnPM software.
https://github.com/bids-apps/cpac
BIDS Application for the Configurable Pipeline for the Analysis of Connectomes (C-PAC)
superres-mri
Portable, modular, reusable, and reproducible processing pipeline software for fetal brain MRI super-resolution
https://github.com/agahkarakuzu/bids2nf
Emits nextflow channels from Brain Imaging Data Structure data.