Lee Tirrell's repositories
toil
A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python
mmvt
The Multi-Modality Visualization Tool (MMVT) is built for researchers who wish to have a better understanding of their neuroimaging anatomical and spatio-temporal data
fs-docker
Dockerfiles for FreeSurfer
cwltool
Common Workflow Language reference implementation
pybids
Python package to access BIDS datasets
pizza-bar
Vote for your favorite pizza 🍕
bidsQC
Scripts to batch convert dicoms to BIDS in parallel on an HPC environment, followed by a file check
grabbit
get grabby with file trees
cloudknot
A python library to run your existing code on AWS Batch
scif
scientific filesystem: a filesystem organization for scientific software and metadata
dicom-anon
Python DICOM Anonymizer
fs-cwl
Common workflow language wrappers and workflow for FreeSurfer
pl-fs6-recon-all
Chris app plugin for FreeSurfer 6.0 recon-all
girder
A data management platform for the web, developed by Kitware
wittr
Silly demo app for an online course
examples
EnvoyAI - Instructions and examples for making your algorithm part of our marketplace
pipelines
pipelines and plugins for the clowdcontrol platform
nipype
Workflows and interfaces for neuroimaging packages
mindcontrol_docs
Documentation for setting up your own mindcontrol instance
mindcontrol
MindControl is an app for quality control of neuroimaging pipeline outputs. Demo:
nbpapaya
View brain images in the ipython notebook using papaya.js
mindboggle
Automated anatomical brain label/shape analysis software (+ website)
metasearch
OpenNeuroLab MetaSearch App
BrainPrint
Python scripts for shape analysis of neuroimaging data (wrapping around shapeDNA and FreeSurfer)