code used for C4_mtscATAC.

We primarily follow the analysis workflow described in Signac(https://stuartlab.org/signac/articles/mito and https://github.com/caleblareau/mtscATACpaper_reproducibility). The specific steps are as follows:
Step 1: Merge the RDS files containing the nuclear-derived epigenetic gene activity from each sample. We provide the main script "signac_merge_tsne.R" and reference commands in "work.sh".
Step 2: Perform cell type annotation using three methods. The cell type annotation scripts for each tissue are provided in separate files.
Step 3: Identify SNPs. First, use mgatk for SNP identification. Then, utilize "SignaC_mgatk.r" for SNP filtering and obtaining SNP distribution information in each cell.