Clone_FinderMarker: Define a function to perform Find marker for top vs bottom...

In chenweng1991/scMitoTracing: R package for Regulatory multi-omics with Deep Mitochondrial mutation profiling

Define a function to perform Find marker for top vs bottom clones This function was developed based on DN4T2.basics.ipynb

Description

Define a function to perform Find marker for top vs bottom clones This function was developed based on DN4T2.basics.ipynb

Usage

Clone_FinderMarker(
  topClones,
  bottomClones,
  HSC_Multiome_wrapper = Donor04_HSC_Multiome_wrapper,
  HSC_redeemR,
  assay = "SCT",
  test = "wilcox"
)

Arguments

topClones	a vector of clone ID eg. c("1","3","7"),this must be in HSC_redeemR@CellMeta$Clone_merge
bottomClones	a vector of clone ID eg. c("2","5"), this must be in HSC_redeemR@CellMeta$Clone_merge
HSC_redeemR	redeemR object for HSC
test	the statistic method to use for DE, a wrapper function from Seurat FindAllMarkers
ob	Seurat object (Multiomics), the postfix needs to be compatible with HSC_redeemR, the cells will be matched by cell names

chenweng1991/scMitoTracing documentation built on July 2, 2024, 8:41 p.m.