Single Cell Data Analysis Notes

Specifics on Wiki!

Misc Resources

Convert objects between anndata and bioconductor : https://bioconductor.org/packages/devel/bioc/vignettes/zellkonverter/inst/doc/zellkonverter.html

Scanpy in R

Important Papers:

Single Cell modalities of data https://www.nature.com/articles/s41592-019-0691-5

GTEX https://www.science.org/doi/full/10.1126/science.aaz1776

Tabula Muris

• https://www.biorxiv.org/content/10.1101/237446v1.full

Tabula Sapiens

https://tabula-sapiens-portal.ds.czbiohub.org

Tools

** For Inference of cell-cell interaction **

CellChat Jin, S. et al. Inference and analysis of cell-cell communication using CellChat. Nat. Commun. 12, 1088 (2021).