Quick Start

Get started with ProtSpace - no installation required.

Try ProtSpace Now

1. Visit the ProtSpace Explore Page
2. Drag & drop a .parquetbundle file onto the scatterplot, or click the Import button
3. Start exploring your protein embeddings!

Don't have data yet?

Open the Import menu and pick one of the Examples: a small demo and the datasets behind the ProtSpace paper's figures, no file of your own needed. See Example Datasets for what each one contains, or generate your own using the Google Colab notebook.

What Can You Do?

• Visualize protein embeddings in 2D to reveal relationships that sequence similarity misses
• Color points by biological annotations (taxonomy, family, function, etc.)
• Filter and isolate specific protein groups
• Search for specific proteins by ID
• View 3D protein structures from AlphaFold
• Export images (PNG, PDF), data (Parquet), and protein IDs

What's Next?

• What is ProtSpace? - Learn about protein embedding visualization
• Prepare Your Data - Generate .parquetbundle files using Google Colab
• Using the Explore Page - Learn all the features of the visualization interface