FOREFRONT BIOINFORMATICS & STATISTICS RESEARCH GROUP

SRA-RNAseq

ukb-IDEARS

UKBiobank dementia, AD and PD classification and SHAP

Augmentor

Image augmentation library in Python for machine learning.

bias-and-LIME

boruta_py

Python implementations of the Boruta all-relevant feature selection method.

cuml

cuML - RAPIDS Machine Learning Library

deep-learning-with-python-notebooks

Jupyter notebooks for the code samples of the book "Deep Learning with Python"

DeepBrain

Deep learning framework for Alzheimer's disease severity index (SI) from brain transcriptomic data

deepgene

Source code of the paper "DeepGene: an advanced cancer type classifier based on deep learning and somatic point mutations"

DeepInsight3D_pkg

DeepInsight3D package to deal with multi-omics or multi-layered data

DeepInsightTab2Image

DeepInsight Tab2Image coder: a simple and easy way of converting tabular data to images for convolutional neural networks (CNNs). Improvements and new packages are added. One line function for data conversion from tabular to image samples.

iDash2020

idears_orig

image-gpt

interpret

Fit interpretable models. Explain blackbox machine learning.

kaggle_moa_winner_hungry_for_gold

Winning Solution of Kaggle Mechanisms of Action (MoA) Prediction.

lime

Lime: Explaining the predictions of any machine learning classifier

matconvnet

MatConvNet: CNNs for MATLAB

mccorkindale_thesis

Code and Supplementary data pertaining to thesis

mClass---Multiple-cancer-classification

ML_cognition

Machine learning code used in our paper to find genes and pathology linked to cognition in the ROSMAP cohort

omicsGAT

Graph Attention Network for Cancer Subtype Analyses

PiML-Toolbox

PiML (Python Interpretable Machine Learning) toolbox for model development and validation

pyDeepInsight

A python implementation of the DeepInsight methodology.

pytorch-grad-cam

Many Class Activation Map methods implemented in Pytorch for CNNs and Vision Transformers. Including Grad-CAM, Grad-CAM++, Score-CAM, Ablation-CAM and XGrad-CAM

RNA-seq_SNP-calling

ROSMAP_RNAseq

Code for machine learning and diffex on ROSMAP RNAseq data

shap

A game theoretic approach to explain the output of any machine learning model.

spinn

Sparse-input neural networks

torch-cam

Class activation maps for your PyTorch models (CAM, Grad-CAM, Grad-CAM++, Smooth Grad-CAM++, Score-CAM, SS-CAM, IS-CAM, XGrad-CAM, Layer-CAM)