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Welcome to SpatialQC

SpatialQC is a spatial transcriptomic data quality control tool. Available for Linux, Windows and macOS. Run SpatialQC and you will get an HTML interactive report and clean data.

Contents

  • Installation - SpatialQC installation instructions.
  • Tutorial - Examples of SpatialQC running on multiple ST platforms. SpatialQC divides the platform into three types:
    (1) Image-based, such as MERFISH, Xenium, COSMX.
    (2) Sequence-based (single cell resolution), such as Stereo-seq, Visium HD, Seq-scope, Pixel-seq, HDST.
    (3) Sequence-based (spot containing multiple cells), such as Visium, ST, Slide-seq.
  • CLI Reference - Detail the command line parameters of SpatialQC.
  • License - MIT License