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@uci-cbcl XIE LAB @ UCI

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    46 repositories

    • XOCT

      Public
      Official implementation of “XOCT: Enhancing OCT to OCTA Translation via Cross-Dimensional Supervised Multi-Scale Feature Learning” (MICCAI 2025)
      medical-imagingoctaophthalmology
      medical-imagingoctaophthalmologyoctoptical-coherence-tomographymiccai2025
      Python
      •1•3•0•0•Updated Oct 26, 2025Oct 26, 2025

    • esm-efficient

      Public
      Efficient implementatin of ESM family.
      proteinesmprotein-language-models
      proteinesmprotein-language-models
      Python
      •
      MIT License
      •6•86•1•1•Updated Sep 9, 2025Sep 9, 2025

    • NIR

      Public
      NIR: Medical Image Registration via Neural Fields [MedIA 2024]
      Python
      •
      Other
      •1•3•0•0•Updated Sep 7, 2025Sep 7, 2025

    • DNVF

      Public
      Python
      •0•0•0•0•Updated Sep 4, 2025Sep 4, 2025

    • CoMA

      Public
      CoMA: Compositional Human Motion Generation with Multi-modal Agents
      Python
      •
      MIT License
      •1•0•0•0•Updated Jul 31, 2025Jul 31, 2025

    • UFold

      Public
      Python
      •
      MIT License
      •34•79•29•0•Updated Apr 22, 2025Apr 22, 2025

    • on-the-fly-guidance

      Public
      [MICCAI 2024] On-the-Fly Guidance Training for Medical Image Registration. Pre-print available in link below.
      Python
      •
      Creative Commons Attribution 4.0 International
      •4•0•0•0•Updated Aug 5, 2024Aug 5, 2024

    • Neural_Diffeomorphic_Flow--NDF

      Public
      Python
      •5•0•0•0•Updated Apr 22, 2024Apr 22, 2024

    • EpiOut

      Public
      A statistical method to detect, analyze and visualize aberrations in chromatin accessibility (ATAC-seq, DNase-Seq) and quantify its effect on gene expression.
      Python
      •0•2•1•0•Updated Mar 6, 2024Mar 6, 2024

    • BioML

      Public
      MIT License
      •1•4•0•0•Updated Feb 15, 2023Feb 15, 2023

    • scFAN

      Public
      Python
      •
      MIT License
      •1•3•0•0•Updated Oct 14, 2022Oct 14, 2022

    • SAILERX

      Public
      Jupyter Notebook
      •0•4•1•0•Updated Jul 3, 2022Jul 3, 2022

    • Video-Pre-Training

      Public
      Video PreTraining (VPT): Learning to Act by Watching Unlabeled Online Videos
      Python
      •
      MIT License
      •172•0•0•0•Updated Jun 25, 2022Jun 25, 2022

    • Nasty-Teacher

      Public
      [ICLR 2021 Spotlight Oral] "Undistillable: Making A Nasty Teacher That CANNOT teach students", Haoyu Ma, Tianlong Chen, Ting-Kuei Hu, Chenyu You, Xiaohui Xie, Z…
      Python
      •
      MIT License
      •16•0•0•0•Updated Dec 30, 2021Dec 30, 2021

    • RP-Net

      Public
      Code for Recurrent Mask Refinement for Few-Shot Medical Image Segmentation (ICCV 2021).
      Python
      •8•60•8•0•Updated Aug 28, 2021Aug 28, 2021

    • SAILER

      Public
      Jupyter Notebook
      •
      MIT License
      •4•6•1•0•Updated Jul 27, 2021Jul 27, 2021

    • NoduleNet

      Public
      [MICCAI' 19] NoduleNet: Decoupled False Positive Reduction for Pulmonary Nodule Detection and Segmentation
      Python
      •
      Other
      •59•223•23•0•Updated Jun 24, 2020Jun 24, 2020

    • FactorNet

      Public
      A deep learning package for predicting TF binding
      Python
      •
      MIT License
      •11•43•3•0•Updated Jan 23, 2020Jan 23, 2020

    • UaNet

      Public
      Jupyter Notebook
      •
      Other
      •17•59•6•0•Updated Dec 17, 2019Dec 17, 2019

    • DeepLung

      Public
      WACV18 paper "DeepLung: Deep 3D Dual Path Nets for Automated Pulmonary Nodule Detection and Classification"
      Python
      •
      GNU General Public License v3.0
      •53•164•2•0•Updated Sep 8, 2019Sep 8, 2019

    • D-GEX

      Public
      Deep learning for gene expression inference
      deep-learninggene-expression
      deep-learninggene-expression
      Python
      •
      GNU General Public License v2.0
      •53•148•0•0•Updated Feb 18, 2019Feb 18, 2019

    • DeepEM-for-Weakly-Supervised-Detection-1

      Public
      MICCAI18 DeepEM: Deep 3D ConvNets with EM for Weakly Supervised Pulmonary Nodule Detection
      Jupyter Notebook
      •17•18•0•0•Updated Jan 16, 2019Jan 16, 2019

    • DeepEM-for-Weakly-Supervised-Detection

      Public
      MICCAI18 DeepEM: Deep 3D ConvNets with EM for Weakly Supervised Pulmonary Nodule Detection
      Apache License 2.0
      •3•16•0•0•Updated Jul 22, 2018Jul 22, 2018

    • EXTREME

      Public
      An online EM implementation of the MEME model for fast motif discovery in large ChIP-Seq and DNase-Seq Footprinting data
      C
      •
      GNU General Public License v2.0
      •3•32•0•0•Updated May 22, 2018May 22, 2018

    • ChestXRay

      Public
      Jupyter Notebook
      •0•5•1•0•Updated Apr 13, 2018Apr 13, 2018

    • HLA-bind

      Public
      Amino acid embedding and Convolutional Neural Network for HLA Class I-peptide binding prediction
      Python
      •
      MIT License
      •14•27•1•0•Updated Aug 3, 2017Aug 3, 2017

    • PyLOH

      Public
      Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity
      Python
      •
      GNU General Public License v2.0
      •15•40•2•0•Updated Jul 19, 2017Jul 19, 2017

    • DeepCons

      Public
      Understanding sequence conservation with deep learning
      HTML
      •
      GNU General Public License v3.0
      •7•20•0•0•Updated Mar 19, 2017Mar 19, 2017

    • CoreNLP

      Public
      Stanford CoreNLP: A Java suite of core NLP tools.
      Java
      •
      GNU General Public License v3.0
      •2.7k•0•0•0•Updated Mar 8, 2017Mar 8, 2017

    • RBPnet

      Public
      Python
      •
      MIT License
      •0•1•0•0•Updated Feb 10, 2017Feb 10, 2017
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