Multi_Wrapper: Wrap Seurat Multiomics clustering

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

Wrap Seurat Multiomics clustering

Description

This function allows you to perform standard sc-multiome clustering

Usage

Multi_Wrapper(
  path =
    "/lab/solexa_weissman/cweng/Projects/MitoTracing_Velocity/SecondaryAnalysis/Donor01_CD34_1_Multiomekit/CellRanger/Donor01_CD34_1/outs",
  atacmin = 1000,
  umimin = 1000,
  CellID = NULL
)

Arguments

path	this should be the path to the cell-ranger results XX/outs
atacmin	minimum atac fragment for each cell, default is 1000
umimin	minimum rna umi for each cell, default is 1000
cellID	to be used for input(useful for re-clustering), default is NULL which will use the info from path/per_barcode_metrics.csv

Value

this returns seurat object with both RNA and ATAC

Examples

Multi_Wrapper(path="XX/CellRanger/Donor01_BMMC_1/outs/")

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