SAW User Manual V8.0
  • Overview
  • Getting Started
    • Introduction
    • Glossary
  • Download Center
  • Analysis
    • Inputs
      • Chip mask
      • FASTQs
      • Images
    • Pipelines
      • SAW commands
      • count
        • Stereo-seq T FF
        • Stereo-seq N FFPE
    • Outputs
      • count outputs
      • realign outputs
      • HTML report
      • BAM
      • Matrices
      • Images
      • Analysis
  • Tutorials
    • Preparation of reference
    • Stereo-seq FF
    • Stereo-seq FFPE
    • With manually processed files
    • Secondary analysis
    • Format conversion
  • Algorithms
    • Read processing algorithms
    • Image processing algorithms
  • Advanced
    • Analysis with GPU
    • Expression matrix format
    • Image-related record format
  • Release Notes
  • SUPPORT PAGES
    • Datasets
    • Troubleshooting
    • Software and Kit Compatibility
    • Q & A
    • StereoMap
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  • What is the Stereo-seq chip?
  • Where to obtain chip mask？
  1. Analysis
  2. Inputs

Chip mask

Last updated 9 months ago

What is the Stereo-seq chip?

The Stereo-seq chip is a technology independently developed by STOmics Tech, that is used to study gene expression, cell changes, and life development in the field of life sciences. This technology utilizes a spatiotemporal transcriptome technique called "Stereo-seq", which captures mRNA in tissues and restores its spatial position using spatiotemporal barcodes (Coordinate ID, CID) to achieve spatial gene expression.

The breakthrough of spatiotemporal omics technology lies in its sub-cellular resolution and a field of view at the centimeter level. The technology can achieve a resolution of 500 nanometers, meaning a single cell can be captured with 400 pixels. By conducting high-precision analysis of gene and cell changes in the development of life across time and space dimensions, spatiotemporal omics offers a new research avenue for understanding cognitive organ structure, life development, human diseases, and species evolution.

Where to obtain chip mask？

The mask file of the Stereo-seq chip is essential for SAW count analysis, which can be obtained from your online project files on STOmics Cloud. Learn about the tutorial, to download the mask file directly to your Linux clustering system.