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CaPTk
Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation: https://cbica.github.io/CaPTkTutorials
Here, we will be showcasing our seminar series โCPP for Image Processing and Machine Learningโ including presentations and code examples. There are image processing and machine learning libraries out there which use C++ as a base and have become industry standards (ITK for medical imaging, OpenCV for computer vision and machine learning, Eigen for linear algebra, Shogun for machine learning). The documentation provided with these packages, though extensive, assume a certain level of experience with C++. Our tutorials are intended for those people who have basic understanding of medical image processing and machine learning but who are just starting to get their toes wet with C++ (and possibly have prior experience with Python or MATLAB). Here we will be focusing on how someone with a good theoretical background in image processing and machine learning can quickly prototype algorithms using CPP and extend them to create meaningful software packages.BrainMaGe
Brain extraction in presence of abnormalities, using single and multiple MRI modalitiesHistoReg
Framework for registration of sequential digitized histology slicesDeep-LIBRA
niCHART
The neuro-imaging brain aging chart [niCHART] is a comprehensive solution to analyze standard structural and functional brain MRI data across studies. [niCHART] and the associated pre-processing tools implement computational morphometry, functional signal analysis, quality control, statistical harmonization, data standardization, interactive visualFigureGenerator
This helps creating high quality figures for use in manuscripts and presentations.DeepSeA
Automatic 3D whole breast segmentation in breast MRIUK_biobank_pipeline_v_1
CaPTk2.0
CmdParser
An easy to use Command Line Parser and Common Workflow Language (CWL) specification creater/readerNiChart_Project
Neuro Imaging Chart of AI-based Imaging BiomarkersSCPLearn
This software generates Sparse Connectivity Patterns from resting state fmri connectivity data.CBICA_Toolkit
This is a toolkit with basic functionality to help C++ projectsMRISnapshot
A QC tool for verification of datasets with MRI images and derived masksOPM
OpenSlide Patch ManagerInteractiveSegmentation
MITK Plugin for Interactive SegmentationMUSE
GBMSurvival_2023
NiChart_Tissue_Segmentation
Brain tissue segmentation using FSL FAST and DLICVcaptk_centos7
CentOS7 docker image for CaPTk compiles to work around GLIBC issuesMICO
DeepMRSegApp
NiChart_Harmonize
Statistical harmonization package in NiChartGLISTRboost
GLISTRboost repo for developmentDeepMRSeg-Models
MASS
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