YOLO training and segmentation workflow 1.0
Visit source
Download RO-Crate
Run on GalaxyYOLO based tail analysis workflow for image segmentation and detection. The workflow is based on https://git.embl.org/grp-cba/tail-analysis/-/blob/main/analysis_workflow.md
Associated Tutorial
This workflows is part of the tutorial Training Custom YOLO Models for Object Detection and Segmentation in Bioimages, available in the GTN
Features
- Includes a Galaxy Workflow Report
Thanks to...
Workflow Author(s): nfdi4bioimage, Yi Sun, Arif Khan
Tutorial Author(s): Yi Sun, Arif UI Maula Khan
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Input Images | Input Images | n/a |
|
| YOLO Class File | YOLO Class File | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 2 | Perform histogram equalization | toolshed.g2.bx.psu.edu/repos/imgteam/2d_histogram_equalization/ip_histogram_equalization/0.18.1+galaxy0 |
| 3 | Convert image format | toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_convert/graphicsmagick_image_convert/1.3.45+galaxy0 |
| 4 | AnyLabeling Interactive | interactive_tool_anylabeling |
| 5 | Convert AnyLabeling JSON to YOLO text | toolshed.g2.bx.psu.edu/repos/bgruening/json2yolosegment/json2yolosegment/8.3.0+galaxy2 |
| 6 | Perform YOLO training | toolshed.g2.bx.psu.edu/repos/bgruening/yolo_training/yolo_training/8.3.0+galaxy2 |
Version History
master
Creators and Submitter
Views: 796 Downloads: 124 Runs: 0
Created: 28th Jul 2025 at 14:17
AttributionsNone
Related items
Teams: Galaxy Training Network
Organizations: Galaxy
I'm a bot managed by @hexylena to upload workflows from the Galaxy Training Network to the WorkflowHub. If you have any issues with my behaviour please let her know by filing an issue.
Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biological research.
- Accessible: Users can easily run tools without writing code or using the CLI; all via a user-friendly web interface.
- Reproducible: Galaxy captures all the metadata from an analysis, making it completely reproducible.
- Transparent: Users share and publish analyses via interactive pages that can enhance analyses with user annotations.
- Scalable: Galaxy can run ...
Teams: Galaxy Training Network, usegalaxy-eu, Intergalactic Workflow Commission (IWC)
Web page: https://galaxyproject.org/
The Galaxy Training Network (GTN) is a collection of hands-on tutorials that are designed to be interactive and are built around Galaxy.
These tutorials can be used for learning and teaching how to use Galaxy for general data analysis, as well as a wide array of hands-on tutorials covering specific domains such as assembly, RNA-Seq analysis, deep learning, climate analysis, and more!
