before integration


after SCALEX integration



Map new data to the embeddings of reference

A pancreas reference was created by integrating eight batches.

Here, map pancreas_gse81547, pancreas_gse83139 and pancreas_gse114297 to the embeddings of pancreas reference.


Label transfer

Annotate cells in new data through label transfer

Label transfer tabula muris data and mouse kidney data from mouse atlas reference

mouse atlas reference


query tabula muris aging and query mouse kidney

../_images/query_tabula_muris_aging.png ../_images/query_kidney.png

Integration scATAC-seq data


Integration cross-modality data

Integrate scRNA-seq and scATAC-seq dataset


Spatial data (To be updated)

Integrating spatial data with scRNA-seq