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BIDS Apps

portable neuroimaging pipelines that understand BIDS datasets

Available BIDS Apps

All apps

aa version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
afni_proc version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
antsCorticalThickness version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
baracus version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
brainiak-srm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BrainSuite version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BROCCOLI version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
CPAC version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
DPARSF version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
example version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
freesurfer version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
hyperalignment version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MAGeTbrain version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mindboggle version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MRtrix3_connectome version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
ndmg version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nipypelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
oppni version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
PyMVPA version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
QAP version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rs_signal_extract version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rsHRF version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
SPM version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
tracula version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidsMReye version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep-fake version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
funcmasker-flex version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
gift-bids version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
hippunfold version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
micapipe version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
dmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mriqc version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nibabies version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nirodents version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
smriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BIDSonym version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
qsiprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
multiscalebrainparcellator version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mialsuperresolutiontoolkit version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

Unmaintainted apps

FibreDensityAndCrosssection version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
niak version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

Apps sorted by input type

For BIDS raw datasets: anat data

antsCorticalThickness version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
baracus version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BrainSuite version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MAGeTbrain version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mindboggle version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
ndmg version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
QAP version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep-fake version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
dmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mriqc version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nibabies version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nirodents version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BIDSonym version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
multiscalebrainparcellator version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

For BIDS raw datasets: func data

afni_proc version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BrainSuite version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
CPAC version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
DPARSF version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
freesurfer version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nipypelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
oppni version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
QAP version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep-fake version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
funcmasker-flex version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mriqc version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nibabies version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nirodents version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

For BIDS raw datasets: dwi data

BrainSuite version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MRtrix3_connectome version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
ndmg version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
tracula version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
dmriprep version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

For BIDS derivative datasets: anat data

bidspm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

For BIDS derivative datasets: func data

brainiak-srm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
hyperalignment version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
PyMVPA version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rs_signal_extract version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rsHRF version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidsMReye version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fitlins version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)

For BIDS derivative datasets: dwi data

MRtrix3_connectome version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 version tag GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)