Psychiatry Neuroimaging Lab @ BWH/HMS

All

52 repositories

pnlNipype
Public
PNL pipeline for NIFTI images
Python
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Other
•15•10•19•1•Updated Mar 14, 2025Mar 14, 2025
old-pnlpipe
Public
Do not use this old repository. Instead, use https://github.com/pnlbwh/luigi-pnlpipe & https://github.com/pnlbwh/pnlNipype
Python
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Other
•9•12•5•1•Updated Mar 12, 2025Mar 12, 2025
luigi-pnlpipe
Public
NIFTI pipeline glued together using Luigi
Python
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Other
•6•7•13•1•Updated Mar 12, 2025Mar 12, 2025
CNN-Diffusion-MRIBrain-Segmentation
Public
CNN based brain masking
Python
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Other
•11•15•2•0•Updated Mar 10, 2025Mar 10, 2025
TBSS
Public
Tract based spatial statistics using ANTs and FSL
Python
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Other
•7•12•9•1•Updated Mar 10, 2025Mar 10, 2025
diskusage-logging
Public
Log disk usage automatically
Python
•1•2•2•0•Updated Mar 4, 2025Mar 4, 2025
ukftractography
Public
3d-slicer-extension
C
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Other
•27•26•15•3•Updated Feb 13, 2025Feb 13, 2025
tract_querier
Public
Implementation of the White Matter Query Language and associated tools for dMRI white matter tract extraction and analysis
Python
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Other
•26•0•0•0•Updated Jan 10, 2025Jan 10, 2025
dMRIharmonization
Public
Multi-site dMRI harmonization
Python
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Other
•14•47•12•0•Updated Jan 9, 2025Jan 9, 2025
HD-BET
Public
MRI brain extraction tool
Python
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Apache License 2.0
•70•0•0•0•Updated Jan 6, 2025Jan 6, 2025
multi-shell-dMRIharmonization
Public
Harmonization of multi-shell diffusion MRI, an enhancement of https://github.com/pnlbwh/dMRIharmonization
Python
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Other
•5•9•5•0•Updated Nov 19, 2024Nov 19, 2024
HCPpipelines
Public
Processing pipelines for the HCP
Shell
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Other
•272•1•4•2•Updated Sep 17, 2024Sep 17, 2024
SlicerDiffusionQC
Public
Quality checking of DWMRI
3d-slicer-extension
Python
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Other
•5•6•9•1•Updated May 16, 2024May 16, 2024
freesurfer-analysis
Public
Interactive analysis of FreeSurfer statistics using https://plotly.com/dash/
Python
•1•1•4•1•Updated Mar 28, 2024Mar 28, 2024
nifti-snapshot
Public
Takes snapshot of Nifti images
Python
•1•5•0•0•Updated Feb 18, 2024Feb 18, 2024
eddy-squeeze
Public
Visualize extra information from FSL 6.0.1 eddy outputs
HTML
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Other
•0•4•2•0•Updated Aug 30, 2023Aug 30, 2023
conversion
Public
Various mri conversion/modification scripts
Python
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Other
•6•21•6•0•Updated May 23, 2023May 23, 2023
dashboard
Public
A lightweight dashboard for monitoring project progress
Python
•0•0•0•0•Updated Jan 1, 2023Jan 1, 2023
pnlpipe_software
Public
Submodule for pnlpipe and pnlNipype software installation
Python
•0•0•2•0•Updated Jan 1, 2023Jan 1, 2023
structuralQC
Public
Machine learning tool for checking goodness of an anatomical scan (T1/T2)
Jupyter Notebook
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Other
•1•1•1•0•Updated Jan 17, 2022Jan 17, 2022
pnl_randomise
Public
FSL randomise related scripts
Python
•4•9•4•0•Updated Jan 10, 2022Jan 10, 2022
pnlpipe-containers
Public
Containers for pnlpipe software
Shell
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Other
•2•0•5•0•Updated Aug 23, 2021Aug 23, 2021
MK-Curve-PNL-Documentation
Public
MK-Curve PNL documentation
0•0•0•0•Updated Mar 10, 2021Mar 10, 2021
tbss_containers
Public
Docker and Singularity containers for pnlbwh/TBSS
Shell
•17•0•0•0•Updated May 24, 2020May 24, 2020
BRAINSTools
Public
A suite of tools for medical image processing focused on brain analysis
C++
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Apache License 2.0
•97•0•0•0•Updated Feb 6, 2020Feb 6, 2020
fsl-containers
Public
Experimental fsl containers for learning purpose, consult fsl license at https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Licence
3•5•1•0•Updated Oct 4, 2019Oct 4, 2019
cmd
Public
Submodule for pnlpipe and pnlNipype software installation
Python
•0•0•0•0•Updated Sep 7, 2019Sep 7, 2019
trainingDataT2Masks
Public
Shell
•0•0•0•0•Updated Jul 2, 2019Jul 2, 2019
trainingDataT1AHCC
Public
Shell
•1•0•0•0•Updated Jul 2, 2019Jul 2, 2019
mri2mrs
Public
Combining diffusion MRI and MRS
MATLAB
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Other
•1•1•2•0•Updated Apr 30, 2019Apr 30, 2019