bioinfo-dirty-jobs

rna-seq-star-deseq2

3d-deep-learning

3D Deep Learning works

3D-ResNets-PyTorch

3D ResNets for Action Recognition (CVPR 2018)

alignment-and-variant-calling-tutorial

basic walk-throughs for alignment and variant calling from NGS sequencing data

ANTs

Advanced Normalization Tools (ANTs)

Attention-Gated-Networks

Use of Attention Gates in a Convolutional Neural Network / Medical Image Classification and Segmentation

Brain-Tumor-Detection-and-Segmentation-using-Deep-Learning

This repo includes Glioma Segmentation with Mask R-CNN and U-Net.

BRAINSTools

A suite of tools for medical image processing focused on brain analysis

CDGnet

Repository for code related to the CDGnet tool for prioritizing targeted cancer therapies

DarcSign

DNA repair classification signatures: Using XGBoost models to classify DNA repair defects from liquid biopsy sequencing.

Data-Augmentation-and-Segmentation-with-GANs-for-Medical-Images

Generating randomized brain MRI images from random noise using a GAN. Additionally translating from one image domain to another with a conditional GAN (pix2pix): Segmenting brain anatomy - Generating brain MRI from the segmentation - Augmenting the translation of image modalities in a limited dataset to perform ischemic stroke segmentation.

deepmedic

Efficient Multi-Scale 3D Convolutional Neural Network for Segmentation of 3D Medical Scans

Fetal-MRI-Segmentation

Total Body and Brain 3D Segmentation in Fetal MRI scans

gbm_immune_validation

Validating glioblastoma immune cell immunohistochemsitry using computational deconvolution of TCGA tumors

GLASS

GLASS consortium

Immuno_notes

Immunology-related bioinformatics data and tools

machine_learning_examples

A collection of machine learning examples and tutorials.

minetorch

Build deep learning applications in a new and easy way.

mrnet

Implementation of the paper: Deep-learning-assisted diagnosis for knee magnetic resonance imaging: Development and retrospective validation of MRNet

NiftyNet

An open-source convolutional neural networks platform for research in medical image analysis and image-guided therapy

pancancer

Building classifiers using cancer transcriptomes across 33 different cancer-types

PharmCAT

The Pharmacogenomic Clinical Annotation Tool

Practical1

pytorch-3dunet

3D U-Net model for volumetric semantic segmentation written in pytorch

pytorch_study

rana2

Notes on Rna-seq analisys procedure

rna2020

Trascriptomics course

shiny-iatlas

An interactive web portal for exploring immuno-oncology data

test_mou

Test

variant_tutorial

Course material for the genetic variant calling tutorial at ILRI Ethiopia