nmskhan's repositories
aedes
AEDES is a graphic user interface (GUI) based tool for region of interest (ROI) analysis of (mainly) MRI images
asl-mricloud
ASL-MRICloud is hosted on braingps.mricloud.org to facilitate automated online processing of ASL MRI data.
awake-fMRI-3d-models
These models are for awake fMRI (mouse)
awesome-cheatsheets
👩💻👨💻 Awesome cheatsheets for popular programming languages, frameworks and development tools. They include everything you should know in one single file.
Bruker
matlab files for reading and processing Bruker MRI data
Diffusion-tensor-images-of-rat-brain-processing
Skull-stripping and bias correction in DTI images of rat brains
ERRM
Code for the Extended Reference Region Model for DCE-MRI (NBM 3924)
fMRI_Analysis
Dump of all codes for fMRI analysis using SPM, roi analysis using Marsbar, Grey matter 3D ASL, Eprime data analysis
FunConPy
Resting State fMRI Functional Connectivity Pipeline
Functional-Connectivity-Analysis
Brain Connectivity Analysis on FMRi data in a memory task performed at Baycrest Hospital
hMRI_mouse
Copy of hMRI Toolbox from (https://github.molgen.mpg.de/hMRI-group/Toolbox/wiki) adapted for mouse analysis
hyperpolarized-mri-toolbox
The goal of this toolbox is to provide research-level and prototyping software tools for hyperpolarized MRI experiments. It is currently based on MATLAB code, and includes code for designing radiofrequency (RF) pulses, readout gradients, and data reconstruction.
MAGeTbrain
Multiple Automatically Generated Templates brain segmentation algorithm
mouse-brain-atlas
Mouse Brain MRI Atlas (MBMA): both in-vivo and ex-vivo
mouse-brain-atlases_generator
Generate a package-manager-friendly mouse brain atlases collection.
mousemorph
Tools for MRI mouse brain morphometry
MouseMRIPrep
Scripts to preprocess mouse MRI/fMRI/dMRI
nf-core-mrimorph
UNDER CONSTRUCTION: Mouse brain morphometry analysis pipeline for MRI imaging data
nf-core-mrimorph-1
UNDER CONSTRUCTION: Mouse brain morphometry analysis pipeline for MRI imaging data
Preclinical-fMRI-registrations
A pipeline to register denoised preclinical fMRI scans to template space
PulseqT1T2Mapping
Contains pulseq definitions for T1 (VFA GRE), T2 (MESE) mapping sequences.
rodent_rsnetworks
A pipeline for rodent functional MRI analysis
rs-fMRI
pre-processing for rs fMRI data aquired using pCASL sequence
rsfMRI
My research project about functional brain connectivity analysis based on time-series data analysis and statistical modeling
rsFMRI-preprocessing
Preprocessing pipeline for resting state MRI data
SAMRI
Small Animal Magnetic Resonance Imaging via Python.
t1-mapping
Efficient Cardiac MRI T1 T2 Mapping with the Levenberg-Marquardt method