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BIDS Apps


portable neuroimaging pipelines that understand BIDS datasets


Available BIDS Apps

All apps

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

Unmaintainted apps

aa GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
FibreDensityAndCrosssection GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
niak 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
baracus GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BrainSuite GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MAGeTbrain GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mindboggle GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
ndmg GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
QAP GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep-fake GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
dmriprep GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mriqc GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nibabies GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nirodents GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BIDSonym GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
multiscalebrainparcellator 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
BrainSuite GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
CPAC GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
DPARSF GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
freesurfer GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nipypelines GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
oppni GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
QAP GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep-fake GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
funcmasker-flex GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fmriprep GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
mriqc GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nibabies GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
nirodents GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
HCPPipelines GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
MRtrix3_connectome GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
ndmg GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
tracula GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
dmriprep GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
qsiprep GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
hyperalignment GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
PyMVPA GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rs_signal_extract GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
rsHRF GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidsMReye GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
bidspm GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
xcp_d GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
fitlins GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 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 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)
connectomemapper3 GitHub last commit Number of open issues on github Number of Docker Pulls Docker Image Size (latest by date)