aggregate_by_cell_bin: Aggregate count CDS by groups of cells

In cole-trapnell-lab/cicero-release: Predict cis-co-accessibility from single-cell chromatin accessibility data

Aggregate count CDS by groups of cells

Description

Aggregates a CDS based on an indicator column in the pData table

Usage

aggregate_by_cell_bin(cds, group_col)

Arguments

cds	A CDS object to be aggregated
group_col	The name of the column in the pData table that indicates the cells assignment to its aggregate bin.

Details

This function takes an input CDS object and collapses cells based on a column in the pData table by summing the values within the cell group.

Value

A count cds aggregated by group_col

Examples

  data("cicero_data")
  #input_cds <- make_atac_cds(cicero_data, binarize = TRUE)
  #pData(input_cds)$cell_subtype <- rep(1:10, times=20)
  #binned_input_lin <-aggregate_by_cell_bin(input_cds, "cell_subtype")

cole-trapnell-lab/cicero-release documentation built on Sept. 4, 2024, 1:49 p.m.