Explore @CBICA Open Source projects

Center for Biomedical Image Computing & Analytics (CBICA) (@CBICA)

CBICA

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Location 🇺🇸 United States
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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/CaPTk

Tutorials

Here, we will be showcasing our seminar series “CPP for Image Processing and Machine Learning” 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 modalities

HistoReg

Framework for registration of sequential digitized histology slices

Deep-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 visual

FigureGenerator

This helps creating high quality figures for use in manuscripts and presentations.

DeepSeA

Automatic 3D whole breast segmentation in breast MRI

UK_biobank_pipeline_v_1

DeepMRSeg

CaPTk2.0

CmdParser

An easy to use Command Line Parser and Common Workflow Language (CWL) specification creater/reader

NiChart_Project

Neuro Imaging Chart of AI-based Imaging Biomarkers

SCPLearn

This software generates Sparse Connectivity Patterns from resting state fmri connectivity data.

CBICA_Toolkit

This is a toolkit with basic functionality to help C++ projects

MRISnapshot

A QC tool for verification of datasets with MRI images and derived masks

OPM

OpenSlide Patch Manager

InteractiveSegmentation

MITK Plugin for Interactive Segmentation

MUSE

GBMSurvival_2023

NiChart_Tissue_Segmentation

Brain tissue segmentation using FSL FAST and DLICV

captk_centos7

CentOS7 docker image for CaPTk compiles to work around GLIBC issues

MICO

DeepMRSegApp

NiChart_Harmonize

Statistical harmonization package in NiChart

GLISTRboost

GLISTRboost repo for development

DeepMRSeg-Models

MITK-Workshop-Project

MASS