DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

Personal Cancer Genome Reporter (PCGR)

EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.

Utilities to download and load an MRI brain tumor dataset with Python, providing 2D slices, tumor masks and tumor classes.

This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

LesionLocator is a framework for zero-shot lesion segmentation and longitudinal tumor tracking in 3D full-body imaging.

Providing top-performing algorithms from the Brain Tumor Segmentation (BraTS) challenges.

DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated matched control.

I very recently lost my amazing Mom to Pancreatic Cancer and this repository shares my story. I also will be writing stories about her and daily journal entries on how I'm feeling after the painful loss.

Sturgeon is a CNS neural network classifier

🤢 Brain 🥶 Tumor 🤡 Detection 🙉 Data 🤖 Science 🧑‍🌾 is a machine 🧑‍🎤 and deep ✈ learning 🛫 project 🚁 focused on 🚋 the early 🚟 detection of 🚀 brain tumors ⛱ using MRI 🚞 scans It 🏫 leverages 🚝 data workflows 🛼 computer 🛸 vision ⛴ and neural 🎳 networks to ⚽ assist 🥎 healthcare ⚾ professionals 🏀 in accurate 🏈 efficient 🎮 diagnosis

a PyQt5 Implementation

Extract and evaluate radiomics for liver cancer tumors from DICOM segmentation masks. Using SimpleITK, PyRadiomics and PyDicom.

🦀 Tumor growth simulation in C++/R

Code, data and model for Pérez-García et al. 2021, "A self-supervised learning strategy for postoperative brain cavity segmentation simulating resections"

CaDRReS-Sc is a framework for analyzing drug response heterogeneity based on single-cell RNA-seq data

3D Slicer plugin for automatic segmentation and generation of standardized clinical reports for the most common brain tumors, using MRI volumes

Deep Learning for Automatic Differential Diagnosis of Primary Central Nervous System Lymphoma and Glioblastoma: Multi-parametric MRI based Convolutional Neural Network Model

Clinical oncology tumor board decision support system made by the Decider project.

A long-read somatic phasing software for tumor-only sequencing