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

pip install SpatialQC

SpatialQC -h

See https://mgy520.github.io/SpatialQC/ for detailed help.

SpatialQC --adata your.h5ad --markers your_genes.csv

Sample reports are available in the SpatialQC/paper_example directory.