calc_abundance: Calculate clonotype abundance

In friedue/SCEdjvdj: Single-cell VDJ Tools for SCE objects

Description

Calculate clonotype abundance

Usage

calc_abundance(
  SCE_in,
  clonotype_col = "cdr3_nt",
  cluster_col = NULL,
  prefix = "",
  return_SCE = TRUE
)

Arguments

SCE_in	SCE object containing V(D)J data
clonotype_col	meta.data column containing clonotype IDs
cluster_col	meta.data column containing cluster IDs to use for grouping cells when calculating clonotype abundance
prefix	Prefix to add to new meta.data columns
return_SCE	Return an SCE object. If set to FALSE, a tibble summarizing the results is returned.

Value

Seurat object with clonotype abundance added to meta.data

Author(s)

djvdj authors

friedue/SCEdjvdj documentation built on April 21, 2021, 7:54 a.m.