combine_cds: Combine a list of cell_data_set objects

Description Usage Arguments Value

View source: R/utils.R

Description

This function will combine a list of cell_data_set objects into a new cell_data_set object.

Usage

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combine_cds(
  cds_list,
  keep_all_genes = TRUE,
  cell_names_unique = FALSE,
  sample_col_name = "sample"
)

Arguments

cds_list

List of cds objects to be combined.

keep_all_genes

Logical indicating what to do if there is a mismatch in the gene sets of the CDSs. If TRUE, all genes are kept and cells from CDSs missing a given gene will be filled in with zeroes. If FALSE, only the genes in common among all of the CDSs will be kept. Default is TRUE.

cell_names_unique

Logical indicating whether all of the cell IDs across all of the CDSs are unique. If FALSE, the CDS name is appended to each cell ID to prevent collisions. Default is FALSE.

sample_col_name

A string to be the column name for the colData column that indicates which original cds the cell derives from. Default is "sample".

Value

A combined cell_data_set object.


cole-trapnell-lab/monocle3 documentation built on April 8, 2021, 5:54 a.m.