CAME

CAME is a tool for Cell-type Assignment and Module Extraction, based on a heterogeneous graph neural network.

To get started with CAME’s pipeline, browse the tutorials below:

• Getting started (for datasets with unaligned features)

• Getting started (for datasets with aligned features)

CAME outputs the quantitative cell-type assignment for each query cell, that is, the probabilities of cell types that exist in the reference species, which enables the identification of the unresolved cell states in the query data.

Besides, CAME gives the aligned cell and gene embeddings across species, which facilitates low-dimensional visualization and joint gene module extraction.

Contents

• Installation
• Tutorials
• API References
• FAQs
• Citation

Citation

If CAME is useful for your research, consider citing our paper:

Liu X, Shen Q, Zhang S. Cross-species cell-type assignment of single-cell RNA-seq by a heterogeneous graph neural network[J]. Genome Research, 2022: gr. 276868.122.

Contribute

• Issue Tracker: https://github.com/XingyanLiu/CAME/issues

• Source Code: https://github.com/XingyanLiu/CAME

Support

If you are having issues, please let us know. We have a mailing list located at:

• xingyan@amss.ac.cn

• 544568643@qq.com

Indices and tables

• Index

• Search Page