README.md

metadata

title: TREAD Protein Repeat Annotation
emoji: 🧬
colorFrom: indigo
colorTo: blue
sdk: gradio
sdk_version: 5.49.1
python_version: 3.10.13
app_file: app.py
pinned: false

TREAD Protein Repeat Annotation

Interactive Gradio web demo for the pretrained TREAD models from:

• https://github.com/KYQiu21/TREAD
• ProtT5 encoder: Rostlab/prot_t5_xl_half_uniref50-enc

The Space exposes the two inference workflows used in the public TREAD Colab demo:

1. RepeatsDB repeat annotation (segmentation + six repeat-fold heads)
2. Beta-propeller blade annotation

Compute

This version is designed for a ZeroGPU Gradio Space and offers two execution paths:

• Run with ZeroGPU (recommended): dynamically requests a GPU only during inference.
• Run on CPU (fallback): does not require GPU quota, but ProtT5-XL inference is much slower.

Reproducibility

The app fetches the same fixed TREAD Git commit used by the working Colab demo:

7a7b3f571778cb89035c798c88df7eacb63ed2c1