Mouse Imaging Centre, Hospital for Sick Children, Toronto Canada

25 Orde Street, Toronto, Ontario M5T 3H7

Pinned Repositories

brain-view2
Language:C++4 2 31
mice-apptainer
Singularity container definition for MICe/Oxford neuroimaging software
0 6 50
minc-stuffs
Scripts and bits of code for minc files.
Language:Python6 8 445
minclaplace
Laplace's equation for measuring thickness (or other uses of streamlines) between two boundaries
Language:Cython8 8 45
MRIcrotome
R package for MRI data visualization
Language:R3 7 211
pydpiper
Python code for flexible pipeline control
Language:Python25 13 44410
pyminc
A python interface to the MINC 2 library, allowing use of numpy arrays to access MINC data, and other such similar goodies, developed by Jason Lerch
Language:Python13 15 378
RMINC
Statistics for MINC volumes: A library to integrate voxel-based statistics for MINC volumes into the R environment. Supports getting and writing of MINC volumes, running voxel-wise linear models, correlations, etc.; correcting for multiple comparisons using the False Discovery Rate, and more. With contributions from Jason Lerch, Chris Hammill, Jim Nikelski and Matthijs van Eede. Some additional information can be found here:
Language:R22 12 30217
Scinet-SS-bayesian-neuroimaging-R
Slides for the Scinet Summer School session on bayesian analysis of neuroimaging data with R and Stan
Language:HTML2 6 01
summer_school2017
Mouse Imaging Summer School 2017
Language:HTML1 5 11

Mouse Imaging Centre, Hospital for Sick Children, Toronto Canada's Repositories

Mouse-Imaging-Centre/pydpiper
Python code for flexible pipeline control
Language:Python25 13 44410
Mouse-Imaging-Centre/RMINC
Statistics for MINC volumes: A library to integrate voxel-based statistics for MINC volumes into the R environment. Supports getting and writing of MINC volumes, running voxel-wise linear models, correlations, etc.; correcting for multiple comparisons using the False Discovery Rate, and more. With contributions from Jason Lerch, Chris Hammill, Jim Nikelski and Matthijs van Eede. Some additional information can be found here:
Language:R22 12 30217
Mouse-Imaging-Centre/pyminc
A python interface to the MINC 2 library, allowing use of numpy arrays to access MINC data, and other such similar goodies, developed by Jason Lerch
Language:Python13 15 378
Mouse-Imaging-Centre/minclaplace
Laplace's equation for measuring thickness (or other uses of streamlines) between two boundaries
Language:Cython8 8 45
Mouse-Imaging-Centre/minc-stuffs
Scripts and bits of code for minc files.
Language:Python6 8 445
Mouse-Imaging-Centre/brain-view2
Language:C++4 2 31
Mouse-Imaging-Centre/MRIcrotome
R package for MRI data visualization
Language:R3 7 211
Mouse-Imaging-Centre/generate_deformation_fields
Given an input Jacobian determinant, this code will generate a deformation field that produces that Jacobian field. (Made for MINC format files)
Language:Python2 6 44
Mouse-Imaging-Centre/Scinet-SS-bayesian-neuroimaging-R
Slides for the Scinet Summer School session on bayesian analysis of neuroimaging data with R and Stan
Language:HTML2 6 01
Mouse-Imaging-Centre/fastCell
Fast Deep Neural Networks for Cell Image Analysis
Language:Python1 2 22
Mouse-Imaging-Centre/mice-nix-overlay
Nix expressions for installing some MINC-related medical image processing software
Language:Nix1 7 6
Mouse-Imaging-Centre/mice-apptainer
Singularity container definition for MICe/Oxford neuroimaging software
0 6 50
Mouse-Imaging-Centre/MICe-lab
Scripts and pipelines that are specific to the Mouse Imaging Centre lab. These programs are not very likely to be applicable to other centres.
Language:Python0 11 203
Mouse-Imaging-Centre/neuronix
Use the Nix package manager to build imaging pipelines
Language:Nix0 6 00
Mouse-Imaging-Centre/.github
Canonical repository for organization-wide README.md.
5 0
Mouse-Imaging-Centre/blog
Language:HTML5 0
Mouse-Imaging-Centre/dcm2bids-conversion
Wrapper package for dcm2bids to convert POND and KIND dicom directories to BIDS
Language:Python6 0
Mouse-Imaging-Centre/mice-spack-packages
Spack packages of MICe software (and some external dependencies)
Language:Python6 0
Mouse-Imaging-Centre/minc-scripts
various scripts processing minc files or minx-associated files
Language:Python6 0
Mouse-Imaging-Centre/minc-toolkit-containers
Making containers with minc-toolkit
Language:Dockerfile6 0
Mouse-Imaging-Centre/minc-toolkit-v2
Version 2 of the minc-toolkit, uses tools based on ITK version 4.x
Language:CMake1 0
Mouse-Imaging-Centre/MINC-VM
Packer built VMs with minc-toolkit and friends
Language:Shell1 0
Mouse-Imaging-Centre/MINC.jl
Julia bindings for the MINC medical imaging library (libminc2)
Language:Julia
Mouse-Imaging-Centre/minc2-simple
simplified MINC2 API
Language:C6 0
Mouse-Imaging-Centre/mincModelExplorer
Language:R8 0
Mouse-Imaging-Centre/Mouse-Imaging-Book
A book detailing how do an end-to-end mouse imaging analysis
6 0
Mouse-Imaging-Centre/pydpiperQC
Language:R
Mouse-Imaging-Centre/RMINC-test-data
Data files for running RMINC tests
5 01
Mouse-Imaging-Centre/scanbaseTools
Tools for uploading and interacting with scanbase
Language:R2 3
Mouse-Imaging-Centre/tissue_vision_tools
Language:Python6 0