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@binfnstats FOREFRONT BIOINFORMATICS & STATISTICS RESEARCH GROUP

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    170 repositories

    • SRA-RNAseq

      Public
      WDL
      •0•3•0•0•Updated Aug 19, 2023Aug 19, 2023

    • idears_orig

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Apr 3, 2023Apr 3, 2023

    • ukb-IDEARS

      Public
      UKBiobank dementia, AD and PD classification and SHAP
      Jupyter Notebook
      •0•3•0•1•Updated Feb 15, 2023Feb 15, 2023

    • RNA-seq_SNP-calling

      Public
      Shell
      •0•0•0•0•Updated Jan 16, 2023Jan 16, 2023

    • DeepInsightTab2Image

      Public
      DeepInsight Tab2Image coder: a simple and easy way of converting tabular data to images for convolutional neural networks (CNNs). Improvements and new packages …
      MATLAB
      •2•0•0•0•Updated Oct 16, 2022Oct 16, 2022

    • cuml

      Public
      cuML - RAPIDS Machine Learning Library
      Cuda
      •
      Apache License 2.0
      •613•0•0•0•Updated Jul 23, 2022Jul 23, 2022

    • DeepInsight3D_pkg

      Public
      DeepInsight3D package to deal with multi-omics or multi-layered data
      MATLAB
      •
      GNU General Public License v3.0
      •4•0•0•0•Updated Jul 19, 2022Jul 19, 2022

    • pyDeepInsight

      Public
      A python implementation of the DeepInsight methodology.
      Python
      •
      GNU General Public License v3.0
      •50•0•0•0•Updated Jul 7, 2022Jul 7, 2022

    • ROSMAP_RNAseq

      Public
      Code for machine learning and diffex on ROSMAP RNAseq data
      R
      •0•0•0•0•Updated Jun 28, 2022Jun 28, 2022

    • mccorkindale_thesis

      Public
      Code and Supplementary data pertaining to thesis
      R
      •0•0•0•0•Updated Jun 23, 2022Jun 23, 2022

    • lime

      Public
      Lime: Explaining the predictions of any machine learning classifier
      JavaScript
      •
      BSD 2-Clause "Simplified" License
      •1.9k•0•0•0•Updated Jun 19, 2022Jun 19, 2022

    • PiML-Toolbox

      Public
      PiML (Python Interpretable Machine Learning) toolbox for model development and validation
      Jupyter Notebook
      •
      Apache License 2.0
      •135•0•0•0•Updated Jun 18, 2022Jun 18, 2022

    • shap

      Public
      A game theoretic approach to explain the output of any machine learning model.
      Jupyter Notebook
      •
      MIT License
      •3.5k•0•0•0•Updated Jun 17, 2022Jun 17, 2022

    • iDash2020

      Public
      Python
      •
      MIT License
      •2•0•0•0•Updated May 30, 2022May 30, 2022

    • omicsGAT

      Public
      Graph Attention Network for Cancer Subtype Analyses
      Python
      •3•0•0•0•Updated May 25, 2022May 25, 2022

    • Augmentor

      Public
      Image augmentation library in Python for machine learning.
      Python
      •
      MIT License
      •875•0•0•0•Updated May 24, 2022May 24, 2022

    • image-gpt

      Public
      Python
      •
      Other
      •387•0•0•0•Updated Apr 29, 2022Apr 29, 2022

    • mClass---Multiple-cancer-classification

      Public
      Python
      •2•0•0•0•Updated Apr 16, 2022Apr 16, 2022

    • deep-learning-with-python-notebooks

      Public
      Jupyter notebooks for the code samples of the book "Deep Learning with Python"
      Jupyter Notebook
      •
      MIT License
      •9k•0•0•0•Updated Apr 11, 2022Apr 11, 2022

    • deepgene

      Public archive
      Source code of the paper "DeepGene: an advanced cancer type classifier based on deep learning and somatic point mutations"
      MATLAB
      •5•0•0•0•Updated Mar 26, 2022Mar 26, 2022

    • kaggle_moa_winner_hungry_for_gold

      Public
      Winning Solution of Kaggle Mechanisms of Action (MoA) Prediction.
      Jupyter Notebook
      •
      Apache License 2.0
      •30•0•0•0•Updated Feb 19, 2022Feb 19, 2022

    • spinn

      Public
      Sparse-input neural networks
      Python
      •4•0•0•0•Updated Feb 11, 2022Feb 11, 2022

    • boruta_py

      Public
      Python implementations of the Boruta all-relevant feature selection method.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •269•0•0•0•Updated Jan 5, 2022Jan 5, 2022

    • pytorch-grad-cam

      Public
      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
      Python
      •
      MIT License
      •1.7k•0•0•0•Updated Jan 2, 2022Jan 2, 2022

    • torch-cam

      Public
      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)
      Python
      •
      Apache License 2.0
      •220•0•0•0•Updated Dec 29, 2021Dec 29, 2021

    • matconvnet

      Public
      MatConvNet: CNNs for MATLAB
      Cuda
      •
      Other
      •748•0•0•0•Updated Dec 21, 2021Dec 21, 2021

    • DeepBrain

      Public
      Deep learning framework for Alzheimer's disease severity index (SI) from brain transcriptomic data
      Python
      •2•0•0•0•Updated Dec 6, 2021Dec 6, 2021

    • bias-and-LIME

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Nov 16, 2021Nov 16, 2021

    • ML_cognition

      Public
      Machine learning code used in our paper to find genes and pathology linked to cognition in the ROSMAP cohort
      Shell
      •0•0•0•0•Updated Oct 4, 2021Oct 4, 2021

    • interpret

      Public
      Fit interpretable models. Explain blackbox machine learning.
      C++
      •
      MIT License
      •777•0•0•0•Updated Sep 28, 2021Sep 28, 2021