QuST PrerequisitesΒΆ

  • QuST includes a user interface for StarDist for convenience. The user who wishes to use StarDist should download and install it separatly.

  • For cell-cell interaction, an additional file, human_lr_pair.csv, is required. The latest version of the file can be obtained from CellChatDB. An older version can be found here. Please cite below publications if you are using their works.

Suoqin Jin et al., CellChat for systematic analysis of cell-cell communication from single-cell and spatially resolved transcriptomics, bioRxiv 2023

Suoqin Jin et al., Inference and analysis of cell-cell communication using CellChat, Nature Communications 2021

  • If you are using the QuST deep learning module, Linux environment with GPUs is strongly recommended for the use case.