Extension of CSS to Python for data integration ?

[eva-artano]

Hello,

Thank you for developing CSS ! We used it on R to integrate cell development data, and it provided the best results for integration in our case.
To perform more advanced analyses, we would like to use CSS for integration in Python (specifically on an AnnData object). Do you have plans to make CSS available for Python as well?

Thanks in advance for your help!

Best,
EA

[zhisonghe]

Hi sorry for the late response.
So far we don't yet have a python package for simspec, but a basic implementation can already be found here: https://github.com/quadbio/scRNAseq_analysis_python_vignette/blob/main/ext/simspec.py

It is under our recently released vignette for analyzing scRNA-seq data with Python. You can also find out the way to use the code and function in the vignette.