CACIMAR: cross-species analysis of cell identities, markers and regulations using single-cell sequencing profiles
CACIMAR has the following 4 main functions:
-
Identify all cell-type specific markers in each species
-
Identify species-specific or evolutionally conserved markers
-
Identify conserved intracellular regulations (gene regulatory networks)
-
Identify conserved intercellular interactions (cell-cell communications)
Install CACIMAR from github, run:
# install.packages("devtools")
devtools::install_github("jiang-junyao/CACIMAR")Using CACIMAR to analyze retina scRNA-seq data from mouse and zebrafish
Preprint: CACIMAR Cross-species Analysis of Cell Identities, Markers, Regulations and Interactions Using Single-cell RNA Sequencing Data(https://www.biorxiv.org/content/10.1101/2024.01.23.576964v1)