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    71 repositories

    • training-material

      Public
      A collection of Galaxy-related training material
      HTML
      •
      MIT License
      •1.1k•0•0•0•Updated Mar 14, 2026Mar 14, 2026

    • gleam

      Public
      GLEAM: Galaxy Learning and Modeling
      HTML
      •
      MIT License
      •2•2•0•2•Updated Mar 11, 2026Mar 11, 2026

    • galaxy-tool-recommendation-agent-benchmark

      Public
      Python
      •2•0•0•0•Updated Mar 5, 2026Mar 5, 2026

    • gleam_use_cases

      Public
      High-quality, pre-processed datasets ready for immediate use with the Tabular Learner, Image Learner, and Multimodal Learner tools. This repository ensures stan…
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 2, 2026Mar 2, 2026

    • HTAN_HR_Figures

      Public
      R
      •0•0•0•0•Updated Feb 5, 2026Feb 5, 2026

    • Melanoma-ICB-mIF

      Public
      R
      •
      MIT License
      •0•0•0•0•Updated Oct 20, 2025Oct 20, 2025

    • ChatAnalysis

      Public
      Galaxy Data Analysis Agent https://usegalaxy.org/root?tool_id=toolshed.g2.bx.psu.edu/repos/goeckslab/chatanalysis/interactive_tool_chat_analysis/0.3.0
      Python
      •
      MIT License
      •2•0•0•0•Updated Sep 10, 2025Sep 10, 2025

    • Galaxy-AutoGluon

      Public
      This repository provides tools to integrate Autogluon, an automated machine learning framework, into the Galaxy workflow environment
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 6, 2025Aug 6, 2025

    • ludwig-use-cases

      Public
      Use cases for Ludwig
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Aug 4, 2025Aug 4, 2025

    • lab-website

      Public
      Source for Goeckslab website
      HTML
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•0•0•Updated Jul 22, 2025Jul 22, 2025

    • tools-mti

      Public
      Python
      •
      MIT License
      •9•3•12•2•Updated Jul 21, 2025Jul 21, 2025

    • pycaret-use-case

      Public
      Use cases for PyCaret
      Jupyter Notebook
      •
      MIT License
      •2•0•0•0•Updated Jul 16, 2025Jul 16, 2025

    • galaxy-hub

      Public
      Galaxy Community Hub
      HTML
      •
      Other
      •318•0•0•0•Updated Jun 20, 2025Jun 20, 2025

    • Galaxy-Ludwig

      Public archive
      Archived — moved to github.com/goeckslab/gleam. A library of Galaxy deep learning tools based on Ludwig
      HTML
      •
      MIT License
      •2•1•5•1•Updated Jun 2, 2025Jun 2, 2025

    • Galaxy-Pycaret

      Public archive
      Archived — moved to github.com/goeckslab/gleam. A library of Galaxy-Pycaret -- part of Galaxy ML2 tools
      HTML
      •
      MIT License
      •1•2•3•1•Updated Jun 2, 2025Jun 2, 2025

    • Galaxy-ML_Report

      Public
      ML visualization tools generate graphs/plots to analyze and understand model results.
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 31, 2025May 31, 2025

    • Galaxy-Multiple_Instance_Learning

      Public archive
      moved to https://github.com/goeckslab/gleam/tree/main/tools/galaxy-mil_bag MIL bag tool group embedding instances into labeled bags for Multiple Instance Learni…
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 23, 2025May 23, 2025

    • Galaxy-Embedding_extractor

      Public archive
      Moved to https://github.com/goeckslab/gleam/tree/main/tools/galaxy-embedding_extractor Tool to extract and save learned feature vectors (embeddings) from pre-tr…
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 1, 2025May 1, 2025

    • Galaxy-Tiling

      Public archive
      moved to https://github.com/goeckslab/gleam/tree/main/tools/galaxy-tiler Efficiently divides large histological images into smaller, manageable tiles. This repo…
      Python
      •
      MIT License
      •0•0•0•0•Updated Apr 30, 2025Apr 30, 2025

    • mcp-server-galaxy-tool

      Public
      MCP server for Generating Galaxy Tools
      Python
      •0•1•0•0•Updated Apr 29, 2025Apr 29, 2025

    • MTIProteinImputation

      Public
      Multiplex Tissue Imaging Protein Imputation
      Python
      •
      MIT License
      •1•2•0•0•Updated Apr 26, 2025Apr 26, 2025

    • usegalaxy-tools

      Public
      usegalaxy.* common tools
      Shell
      •
      MIT License
      •67•0•0•0•Updated Jan 9, 2025Jan 9, 2025

    • Galaxy-ML

      Public
      Make machine learning simpler with Galaxy
      HTML
      •
      MIT License
      •7•12•7•1•Updated Jul 16, 2024Jul 16, 2024

    • Spatial_Imputation

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Dec 26, 2023Dec 26, 2023

    • WindowMasker

      Public archive
      Perl
      •
      Academic Free License v3.0
      •4•1•1•1•Updated Dec 16, 2023Dec 16, 2023

    • MarkerIntensityPredictor

      Public
      Python
      •
      MIT License
      •1•3•0•0•Updated Oct 14, 2023Oct 14, 2023

    • sb-galaxy-dockerfile

      Public
      A Dockerfile to test the latest Galaxy with sb-cgc infrastructure
      Dockerfile
      •0•0•2•0•Updated May 23, 2023May 23, 2023

    • Goecks_BGMP

      Public
      Repository for scripts and images for Goecks-BGMP Breast Cancer Image Analysis project
      Python
      •1•0•0•0•Updated Mar 16, 2023Mar 16, 2023

    • Ludwig-ISPY2

      Public archive
      Python
      •0•0•0•1•Updated Mar 7, 2023Mar 7, 2023

    • cloud_tool_graphing

      Public
      Python
      •0•0•3•0•Updated Feb 16, 2023Feb 16, 2023