filter_genes_without_1to1_homolog: filter_genes_without_1to1_homolog

In NathanSkene/EWCE: Expression Weighted Celltype Enrichment

filter_genes_without_1to1_homolog

Description

Deprecated function. Please use filter_nonorthologs instead.

Usage

filter_genes_without_1to1_homolog(
  filenames,
  input_species = "mouse",
  convert_nonhuman_genes = TRUE,
  annot_levels = NULL,
  suffix = "_orthologs",
  verbose = TRUE
)

Arguments

filenames	List of file names for sct_data saved as .rda files.
input_species	Which species the gene names in exp come from.
convert_nonhuman_genes	Whether to convert the exp row names to human gene names.
annot_levels	[Optional] Names of each annotation level.
suffix	Suffix to add to the file name (right before .rda).
verbose	Print messages.

Details

Note: This function replaces the original filter_genes_without_1to1_homolog function. filter_genes_without_1to1_homolog is now a wrapper for filter_nonorthologs.

Value

List of the filtered CellTypeData file names.

Examples

# Load the single cell data
ctd <- ewceData::ctd()
tmp <- tempfile()
save(ctd, file = tmp)
fNames_ALLCELLS_orths <- EWCE::filter_nonorthologs(filenames = tmp)

NathanSkene/EWCE documentation built on July 11, 2024, 4:19 a.m.