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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•1•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 are added. One line function for data conversion from tabular to image samples.
      MATLAB
      •2•0•0•0•Updated Oct 16, 2022Oct 16, 2022

    • cuml

      Public
      cuML - RAPIDS Machine Learning Library
      Cuda
      •
      Apache License 2.0
      •535•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
      •2•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
      •47•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
      •1.8k•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
      •124•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
      •3.3k•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
      •4•0•0•0•Updated May 25, 2022May 25, 2022

    • Augmentor

      Public
      Image augmentation library in Python for machine learning.
      Python
      •
      MIT License
      •866•0•0•0•Updated May 24, 2022May 24, 2022

    • image-gpt

      Public
      Python
      •
      Other
      •389•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
      •8.7k•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
      •27•0•0•0•Updated Feb 19, 2022Feb 19, 2022

    • spinn

      Public
      Sparse-input neural networks
      Python
      •3•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
      •258•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
      •1.6k•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
      •211•0•0•0•Updated Dec 29, 2021Dec 29, 2021

    • matconvnet

      Public
      MatConvNet: CNNs for MATLAB
      Cuda
      •
      Other
      •752•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
      •735•0•0•0•Updated Sep 28, 2021Sep 28, 2021